Archive v2-reproduction-20260922 inputs

confidence-v2/v2-reproduction-20260922/dataset.json

@@ -0,0 +1,326 @@
+{
+  "repo_id": "Synthyra/AtlasFold-Data",
+  "revision": "98b5212fd04cc34e3cdcb43c9bc6a66639ef4041",
+  "files": {
+    "data/rcsb/train-00000-of-00040.parquet": {
+      "sha256": "a7341f082ba1374f9a22c32e751fe2ae669167d8b238abd80d69cef851a71828",
+      "size": 304199206
+    },
+    "data/rcsb/train-00001-of-00040.parquet": {
+      "sha256": "3f191ab3a95cbfad796f11f058cf5ced37d429212a4869b13f8c19eec4ab48bc",
+      "size": 305268095
+    },
+    "data/rcsb/train-00002-of-00040.parquet": {
+      "sha256": "18cdfe2ce052504b90c6ea6835960bf9d5c3bd207075eaf26311ce48b48c9204",
+      "size": 303442610
+    },
+    "data/rcsb/train-00003-of-00040.parquet": {
+      "sha256": "ab79efeaecd0251cecb36e260a68afb03d19ed5b762c6667841526e51815180f",
+      "size": 302371682
+    },
+    "data/rcsb/train-00004-of-00040.parquet": {
+      "sha256": "381c29da9f9123d654e0e1e61497f4f399dede328efefe2dde2dff13cf72094b",
+      "size": 304608534
+    },
+    "data/rcsb/train-00005-of-00040.parquet": {
+      "sha256": "d4731ff642728a1c61ee3d8a039379cffd56e6855ba3ff0702302808ecaee782",
+      "size": 306186083
+    },
+    "data/rcsb/train-00006-of-00040.parquet": {
+      "sha256": "3856eb6d7cb1cc65c51f660c2f52527f294eec47ae357a45ad96bff31844f762",
+      "size": 304686593
+    },
+    "data/rcsb/train-00007-of-00040.parquet": {
+      "sha256": "2b457affd53e549f4199dac360e02501b4e74d87a5f6cfea86edc18354e19748",
+      "size": 304022405
+    },
+    "data/rcsb/train-00008-of-00040.parquet": {
+      "sha256": "e0960fb52853eee0af5257797ae7df35c48c5e008b1c313132bb5c43c92ace17",
+      "size": 304833689
+    },
+    "data/rcsb/train-00009-of-00040.parquet": {
+      "sha256": "8f70a5695583bd1445f17c792ba42ae50b37d6ebb1f461310a6fcdc385984107",
+      "size": 306084763
+    },
+    "data/rcsb/train-00010-of-00040.parquet": {
+      "sha256": "1e13ffaa51458030f91b08ede25027a02934f57e12fd549df50f329fe06e770a",
+      "size": 302162696
+    },
+    "data/rcsb/train-00011-of-00040.parquet": {
+      "sha256": "3c06d660d75746638aab4d6332ef74afc2c4d0de8c567b91d24755111fb00c53",
+      "size": 303245600
+    },
+    "data/rcsb/train-00012-of-00040.parquet": {
+      "sha256": "5fe33c843b7b47efcf883602727462897ff986e3c8f12348da9dc695a9d6ba38",
+      "size": 308901829
+    },
+    "data/rcsb/train-00013-of-00040.parquet": {
+      "sha256": "7a84f013aa228717f53d4ab745f67dbb7c0b556e506eab11a4d3e3aba48b85f2",
+      "size": 300311368
+    },
+    "data/rcsb/train-00014-of-00040.parquet": {
+      "sha256": "b3dbc7c4a81e13057676cd396be02611d3ab5fb7983a0fd67454602ff2b5573e",
+      "size": 302351799
+    },
+    "data/rcsb/train-00015-of-00040.parquet": {
+      "sha256": "5ec852b99a0747f960b74cd58fab448701988cbfbc76bad0f5cc14a5c02d97b6",
+      "size": 304994587
+    },
+    "data/rcsb/train-00016-of-00040.parquet": {
+      "sha256": "3af4d3e3c8319234f62bd8a154eb0b7f0a8e5f898b7845f635b197eb05da32a6",
+      "size": 307288760
+    },
+    "data/rcsb/train-00017-of-00040.parquet": {
+      "sha256": "1d2af3b0191c1802b210baed64f3a570902cfa7869e69cf3d6d2455c4efee52d",
+      "size": 305308932
+    },
+    "data/rcsb/train-00018-of-00040.parquet": {
+      "sha256": "5ca9fd1c235cbc8be8973db5d5e2a4e5d220f863d908f372f74b1de220fc63ac",
+      "size": 302408091
+    },
+    "data/rcsb/train-00019-of-00040.parquet": {
+      "sha256": "4408ea05a2c288d12cd6d5624ca9ee895413a9478e4b3602b0d3df7cd8e73e5f",
+      "size": 301305380
+    },
+    "data/rcsb/train-00020-of-00040.parquet": {
+      "sha256": "171c60863bd2b7b89e45858ca24002ede41e8ca640a32922b9335155c9fc8894",
+      "size": 301654749
+    },
+    "data/rcsb/train-00021-of-00040.parquet": {
+      "sha256": "642964e8baab9eaf29240a9875a72ac5b0dd10f7137ed26a7ee57cdf067009d8",
+      "size": 302101624
+    },
+    "data/rcsb/train-00022-of-00040.parquet": {
+      "sha256": "bc483a7e3b3e2f8083c0a1e076affc22abfa92be70ad82442f24c58dcc173636",
+      "size": 308835895
+    },
+    "data/rcsb/train-00023-of-00040.parquet": {
+      "sha256": "7ae759ae3efb1857665e2a7b29d5eeb8d848bb9afec7154d61b27128e571a172",
+      "size": 305419921
+    },
+    "data/rcsb/train-00024-of-00040.parquet": {
+      "sha256": "f83ccefb9226f12f48d5ab226a3b5f2c8af7b2713651431ae3841ae4232705b6",
+      "size": 303399530
+    },
+    "data/rcsb/train-00025-of-00040.parquet": {
+      "sha256": "89faa68fdf13484ecb2d5b7ad2278c995ded33e5cee27710bbe7223ad75dc3b2",
+      "size": 304304264
+    },
+    "data/rcsb/train-00026-of-00040.parquet": {
+      "sha256": "44723addc59b30bd39fcbd6b6543a7489916d2036a903eb06961e9479d53b9eb",
+      "size": 302833311
+    },
+    "data/rcsb/train-00027-of-00040.parquet": {
+      "sha256": "99ef2ef14b71cb0cba76e0fcd63b0985c887a9fa9b66a0a5683c3e842843a470",
+      "size": 303279291
+    },
+    "data/rcsb/train-00028-of-00040.parquet": {
+      "sha256": "3efa59afd8b785ee7cac20d5c041e611974d66205f379fc3c422f25600050ef5",
+      "size": 307132313
+    },
+    "data/rcsb/train-00029-of-00040.parquet": {
+      "sha256": "b7863f83e5482e2ec88ee4250e758a70c9787e7fe7ad4763cd5d3ad0dfa3b6e1",
+      "size": 305839159
+    },
+    "data/rcsb/train-00030-of-00040.parquet": {
+      "sha256": "148603bad141f048669ec827701781e1f27d0eb37c0c487efd774e87b52ac08c",
+      "size": 302965242
+    },
+    "data/rcsb/train-00031-of-00040.parquet": {
+      "sha256": "0e5651cca33534042b36c314076615fcb1bf996c0f4bf38848ebe29d6977f823",
+      "size": 302241139
+    },
+    "data/rcsb/train-00032-of-00040.parquet": {
+      "sha256": "835bb749bc2a97536ef3aece992e7fe87608b5abcc32200bffbc4a511cf75fb1",
+      "size": 305542613
+    },
+    "data/rcsb/train-00033-of-00040.parquet": {
+      "sha256": "7aadecde1bcfc9ab155a5af470e77c990cc83e8b40a6b6a0c3021f9369edb5dd",
+      "size": 306531627
+    },
+    "data/rcsb/train-00034-of-00040.parquet": {
+      "sha256": "84c6a7ec999293f84b38a19bc9bdf19ef77ec6d7b390278cc27d1c6f9841969e",
+      "size": 306264911
+    },
+    "data/rcsb/train-00035-of-00040.parquet": {
+      "sha256": "9b4e60a5d00b619242d4038dba62b3d86e070249605e971bd9ac95e62fcc86f1",
+      "size": 306970889
+    },
+    "data/rcsb/train-00036-of-00040.parquet": {
+      "sha256": "44c2503b7ef51fdbdcd737602f3c3daeee210f2181939364bcad72b4ea2835b9",
+      "size": 308565300
+    },
+    "data/rcsb/train-00037-of-00040.parquet": {
+      "sha256": "6714cdf5d46c9b0dc25cac06d616b001e8017b7a4f14055d14a7f1616b99ff51",
+      "size": 303548433
+    },
+    "data/rcsb/train-00038-of-00040.parquet": {
+      "sha256": "cca3f1f27333c9cb10930b42e473fc8598923ae8a75a22951cd8a886cdb18d0e",
+      "size": 306910184
+    },
+    "data/rcsb/train-00039-of-00040.parquet": {
+      "sha256": "fd9720978c2c46b174db59fc19775bcde6ba31204ced92085734d2efded6adf3",
+      "size": 304268708
+    },
+    "data/rcsb_multimer/train-00000-of-00040.parquet": {
+      "sha256": "7b69501f138183e6d3331066bbc333c999efe65d2ee34959c5295589c33a92ce",
+      "size": 269756840
+    },
+    "data/rcsb_multimer/train-00001-of-00040.parquet": {
+      "sha256": "2fae0a07dd8d97116d12f27399557b86e26c0f5b9bdd0bddec58478f12707098",
+      "size": 280935839
+    },
+    "data/rcsb_multimer/train-00002-of-00040.parquet": {
+      "sha256": "83ce1dda7da7f0b8b38bb86b6c31257ad5e8dd788fa6a8bc842b4e220032b196",
+      "size": 281513515
+    },
+    "data/rcsb_multimer/train-00003-of-00040.parquet": {
+      "sha256": "2f1fe6b846cc8021ed227acb23e9b44a1b2c5f032e522484caeb37436b2aca65",
+      "size": 274207262
+    },
+    "data/rcsb_multimer/train-00004-of-00040.parquet": {
+      "sha256": "09ac5bdabbcde096aefa1b53e64401540544687af6a67d016340dd3b9da98e67",
+      "size": 286148359
+    },
+    "data/rcsb_multimer/train-00005-of-00040.parquet": {
+      "sha256": "d5403aa276dceb3995e47cd50716d2fd315743f19d71f51535547c736e461da4",
+      "size": 276157239
+    },
+    "data/rcsb_multimer/train-00006-of-00040.parquet": {
+      "sha256": "1dc774082fd5b7a5ebb118a924f666e095c19df02a2ba968065390aca1f4d7ca",
+      "size": 280778477
+    },
+    "data/rcsb_multimer/train-00007-of-00040.parquet": {
+      "sha256": "9350e752212cf38ad22322527edcffcb8638bb9522d014b13a070921bd512193",
+      "size": 268604041
+    },
+    "data/rcsb_multimer/train-00008-of-00040.parquet": {
+      "sha256": "ac58b4320614212baa73d547520cc42aaeb5ad294bbbb53d5f06c90f10fc6761",
+      "size": 270603656
+    },
+    "data/rcsb_multimer/train-00009-of-00040.parquet": {
+      "sha256": "d1c464f114ff9bc23443f5d49331f66dc73ecf38818703c11a0cb00687579293",
+      "size": 278427205
+    },
+    "data/rcsb_multimer/train-00010-of-00040.parquet": {
+      "sha256": "cb218cf9e92a816a9ccad36a2a8bf4ba8bd828fc639f5a8d335e8216cc7a9c25",
+      "size": 269798668
+    },
+    "data/rcsb_multimer/train-00011-of-00040.parquet": {
+      "sha256": "24e08441c67c2c6da71694f79895c439fa0353a0b3e81236412ac6ebceee489c",
+      "size": 283348980
+    },
+    "data/rcsb_multimer/train-00012-of-00040.parquet": {
+      "sha256": "5e3e38ef41e2cb6c3e568f283b051da13d19259eae82da937711a3fc917b5626",
+      "size": 287109096
+    },
+    "data/rcsb_multimer/train-00013-of-00040.parquet": {
+      "sha256": "c41d57d761a4b27f9c7a5977197ab2520e28e1b3ba3d19de4256ecf1bdb30c32",
+      "size": 275252807
+    },
+    "data/rcsb_multimer/train-00014-of-00040.parquet": {
+      "sha256": "579b37c69facdf09944227634c52501d11317c945a1bea3c6a4f805c7b6bfc2c",
+      "size": 278827621
+    },
+    "data/rcsb_multimer/train-00015-of-00040.parquet": {
+      "sha256": "7c87b86e4d470b3355dab78ccdd136eb084916dde5dd8a95bc574fb124a902e6",
+      "size": 276032488
+    },
+    "data/rcsb_multimer/train-00016-of-00040.parquet": {
+      "sha256": "4e9795c2a81a9da2a646ff2cefcf788232223af43683d544b5a6016c40fac8ef",
+      "size": 284199426
+    },
+    "data/rcsb_multimer/train-00017-of-00040.parquet": {
+      "sha256": "dcd941a6bde7772ca5d9550ed9350a0d950d9fde1f369ee321af780763cd5981",
+      "size": 281089297
+    },
+    "data/rcsb_multimer/train-00018-of-00040.parquet": {
+      "sha256": "30e6c4584eb4fab3b5447168e9a3a2241d002263b7812514dcd76aeb00741da0",
+      "size": 279854887
+    },
+    "data/rcsb_multimer/train-00019-of-00040.parquet": {
+      "sha256": "5bac07aeb5f684055dc773c581e1ff6d8c2f6c3132b49b676ce85991e5cc2a07",
+      "size": 277534929
+    },
+    "data/rcsb_multimer/train-00020-of-00040.parquet": {
+      "sha256": "9167d145749ad19d60bb7c83e6c8ac40ab224f332d973f3f364ad9d5283921b9",
+      "size": 277680471
+    },
+    "data/rcsb_multimer/train-00021-of-00040.parquet": {
+      "sha256": "5ce97c03a1a3dc0759e0ac48e75c13c9768aa26bdfdcf29b72bb7f4db6309130",
+      "size": 282167614
+    },
+    "data/rcsb_multimer/train-00022-of-00040.parquet": {
+      "sha256": "930b0c63063867e84a0f2bfaf97d752387ba27eaadb109efbc37edb6ed5e4e54",
+      "size": 272262539
+    },
+    "data/rcsb_multimer/train-00023-of-00040.parquet": {
+      "sha256": "1d52faa3802382edb2fd61a015454d4630519b5abad8dd358d45b1ca8353d0f8",
+      "size": 285470260
+    },
+    "data/rcsb_multimer/train-00024-of-00040.parquet": {
+      "sha256": "3d5e951228f1ad05772153bcd80de22d28779ca64e846198d50becbaf7b03b51",
+      "size": 278303530
+    },
+    "data/rcsb_multimer/train-00025-of-00040.parquet": {
+      "sha256": "1df555c4a1201126c73c0e8708ac6b4c33136a3c3de12a42cd3e7a9c9c06e4c1",
+      "size": 290948856
+    },
+    "data/rcsb_multimer/train-00026-of-00040.parquet": {
+      "sha256": "028b234b1edb9572e4c547506b8dd748e8035e5c916b2ab21c49fbfa4866ce94",
+      "size": 280472316
+    },
+    "data/rcsb_multimer/train-00027-of-00040.parquet": {
+      "sha256": "936ccf938e1165130c960e125b25e704003a403db758fe1cfb6b34af530fc5b2",
+      "size": 281100144
+    },
+    "data/rcsb_multimer/train-00028-of-00040.parquet": {
+      "sha256": "d5714a9e3d85961e8c697351a9bf67f764691d809d2e40c9caba0a27c61f9f37",
+      "size": 280015844
+    },
+    "data/rcsb_multimer/train-00029-of-00040.parquet": {
+      "sha256": "ccd22897fd2cb9831ad89a56a83347c5a70993df9e8485e8aef31cb9c0bdf0cf",
+      "size": 279952863
+    },
+    "data/rcsb_multimer/train-00030-of-00040.parquet": {
+      "sha256": "04739ef1964090b260e5face65ebea8a29ae9cc7cf5a20849806e276e2f6bcb7",
+      "size": 284277386
+    },
+    "data/rcsb_multimer/train-00031-of-00040.parquet": {
+      "sha256": "f89f3b0156e005ca6534b1c68e0be128bff2cc2bc12301a2e351044e41ad4486",
+      "size": 282218747
+    },
+    "data/rcsb_multimer/train-00032-of-00040.parquet": {
+      "sha256": "e9daaae6da71fbd3a9c7fceb80473de0bfaffd46c78e81fb4c19c452e539e583",
+      "size": 286732623
+    },
+    "data/rcsb_multimer/train-00033-of-00040.parquet": {
+      "sha256": "79709e73fbd63608a7f44cdc45c6cde102cdf10ef493519656acea684f697727",
+      "size": 282275206
+    },
+    "data/rcsb_multimer/train-00034-of-00040.parquet": {
+      "sha256": "933f526863154efe49ef9d5740b9c79b29871af3e13475b6bf875477524b7455",
+      "size": 269290833
+    },
+    "data/rcsb_multimer/train-00035-of-00040.parquet": {
+      "sha256": "3aef28d3788734e26093130d90fc9c3cb7f2e9ed5dde577444ddc7ab693ee6ea",
+      "size": 280719153
+    },
+    "data/rcsb_multimer/train-00036-of-00040.parquet": {
+      "sha256": "2e86f95ca035822ef56380ece464d968c13c412e52894ac089c369fa62b89171",
+      "size": 277671417
+    },
+    "data/rcsb_multimer/train-00037-of-00040.parquet": {
+      "sha256": "4b87068cc68c9fb60f4cba3a124e88da6e3ad9b5dd91fd12aca22daa08246f09",
+      "size": 276252320
+    },
+    "data/rcsb_multimer/train-00038-of-00040.parquet": {
+      "sha256": "ea39288930cba457ef08e7ed715f905ab8e329a659062684a229b17aeccfd8d5",
+      "size": 279186436
+    },
+    "data/rcsb_multimer/train-00039-of-00040.parquet": {
+      "sha256": "64961d81507cd08812e845197116f9a6cf0bd42f11675f725bb3a1ceed1a11fb",
+      "size": 276275208
+    }
+  }
+}

confidence-v2/v2-reproduction-20260922/prepared.json

@@ -0,0 +1,109 @@
+{
+  "status": "prepared",
+  "dataset_revision": "98b5212fd04cc34e3cdcb43c9bc6a66639ef4041",
+  "pool": {
+    "rows": 668066,
+    "eligible_rows": 595236,
+    "targets": 545078,
+    "targets_by_source_and_variant": [
+      {
+        "source": "rcsb",
+        "variant": "standard",
+        "target_id_count": 433964
+      },
+      {
+        "source": "rcsb",
+        "variant": "long",
+        "target_id_count": 3247
+      },
+      {
+        "source": "rcsb_multimer",
+        "variant": "standard",
+        "target_id_count": 81381
+      },
+      {
+        "source": "rcsb_multimer",
+        "variant": "long",
+        "target_id_count": 26486
+      }
+    ],
+    "max_resolution_angstrom": 4.0,
+    "token_budget": 1024,
+    "long_token_budget": 2048
+  },
+  "splits": {
+    "status": "verified",
+    "targets_sha256": "f6b98315720fe663ac282c665ebf79b3996ad038d8a6034da39c5dc7af24f727",
+    "sequences": 106860,
+    "clusters": 35543,
+    "components": 22958,
+    "largest_components": [
+      {
+        "component": 31161,
+        "standard_targets": 187914
+      },
+      {
+        "component": 7588,
+        "standard_targets": 3104
+      },
+      {
+        "component": 29315,
+        "standard_targets": 2872
+      },
+      {
+        "component": 18136,
+        "standard_targets": 2511
+      },
+      {
+        "component": 35024,
+        "standard_targets": 2362
+      }
+    ],
+    "counts": {
+      "test/complex": 128,
+      "test/dimer_hetero": 96,
+      "test/dimer_homo": 96,
+      "test/long": 64,
+      "test/monomer_long": 64,
+      "test/monomer_medium": 64,
+      "test/monomer_short": 64,
+      "train/complex": 25504,
+      "train/dimer_hetero": 11300,
+      "train/dimer_homo": 36652,
+      "train/monomer_long": 31318,
+      "train/monomer_medium": 141576,
+      "train/monomer_short": 229619,
+      "unused/complex": 3661,
+      "unused/dimer_hetero": 1222,
+      "unused/dimer_homo": 2562,
+      "unused/long": 29669,
+      "unused/monomer_long": 2277,
+      "unused/monomer_medium": 8196,
+      "unused/monomer_short": 20690,
+      "validation/complex": 64,
+      "validation/dimer_hetero": 48,
+      "validation/dimer_homo": 48,
+      "validation/monomer_long": 32,
+      "validation/monomer_medium": 32,
+      "validation/monomer_short": 32
+    },
+    "train_targets": 475969,
+    "pilot_components_excluded_from_heldout": 1068,
+    "pilot_final_test_clusters_excluded_from_train": 146,
+    "mmseqs": {
+      "min_seq_id": 0.4,
+      "coverage": 0.8,
+      "cov_mode": 0
+    },
+    "seed": 20260917
+  },
+  "historical_split_sha256": "da801db539deabdc36d6060e5ef8570ca6cff15374a04dca5280bdcc31166bdd",
+  "matches_historical_split_bytes": false,
+  "test_set_status": "spent",
+  "mmseqs_version": "14-7e284+ds-1+b2",
+  "pilot_files": {
+    "esmfold2_300-head.safetensors": "4dfc691e529617fc7cc0cd1ee60799ce1b496fdd0d17f0b4bb78b33a96c77733",
+    "esmfold2_600-head.safetensors": "413db7dec0730c4928cf351fd77337d70c7943fa4582758b42f2e9055699da4d",
+    "records.json": "7cc79fb577fa7121e9f1c1d2f3c73f55a332cbdb1772802a18acf535de63be99"
+  }
+}

confidence-v2/v2-reproduction-20260922/source-files.json

@@ -0,0 +1,614 @@
+{
+  "src/fastplms/models.toml": {
+    "size": 83488,
+    "sha256": "0967a7805cd5ba107825a7dc473008d49c0334bd18714e1dfa9e51d0c42ee6f1"
+  },
+  "src/fastplms/__init__.py": {
+    "size": 1857,
+    "sha256": "8503e02debf24abc6d33c1913ff3eb9f245e63f7e62017e220d072c7393fdf2c"
+  },
+  "src/fastplms/attention/__init__.py": {
+    "size": 2259,
+    "sha256": "ae5c77f7293ae4a411fe1e57ac1e0ba69d47c077de8e46f6561f9af58ba2b5e2"
+  },
+  "src/fastplms/attention/_auto.py": {
+    "size": 7050,
+    "sha256": "d7adc2c3d9bb1a5b301e1a379ce28983f134ddbac9b44a3cf5bbf322cd7139a5"
+  },
+  "src/fastplms/attention/_core.py": {
+    "size": 35863,
+    "sha256": "3f3a09c590f566cb77d9586fd8ccff48496a67be0ace20e3db90165b54ffa07e"
+  },
+  "src/fastplms/attention/_kernel_lock.py": {
+    "size": 7063,
+    "sha256": "17adb859c994676b81df142e61d26ee5a723080c2a4fabc78c650b57300d51f8"
+  },
+  "src/fastplms/attention/interfaces.py": {
+    "size": 16976,
+    "sha256": "3b538e4b109f57b2a3a74cb1f0f7cbe8b43b6b6479f7161475cc1ec9bb260a08"
+  },
+  "src/fastplms/embeddings/__init__.py": {
+    "size": 1505,
+    "sha256": "cf0648de905a00ad16c0aece328eeb05f25739a4cf89b47b915e0f2b19c3ce26"
+  },
+  "src/fastplms/embeddings/batches.py": {
+    "size": 16175,
+    "sha256": "569693978dafddf585e45789b6ea9b45246c604def422f3c13dae54396503a25"
+  },
+  "src/fastplms/embeddings/identity.py": {
+    "size": 21198,
+    "sha256": "9508d14d2a997250e388dd94d2357eee28792e5da67509e917179160e627720d"
+  },
+  "src/fastplms/embeddings/inputs.py": {
+    "size": 9833,
+    "sha256": "b9c3f3eb228a6b21948afc141bd148d4d976cd4c142a9f180f36c33d6ff99599"
+  },
+  "src/fastplms/embeddings/output.py": {
+    "size": 9082,
+    "sha256": "1b86275772880de0f4ee51d7a125a877dab086cf56a4ec257dce7b9805cc8289"
+  },
+  "src/fastplms/embeddings/pooling.py": {
+    "size": 9876,
+    "sha256": "a393e78523e1fcb7362755619a580ea443814a410a995d90bd2d90f5b1d57bd9"
+  },
+  "src/fastplms/embeddings/runner.py": {
+    "size": 18432,
+    "sha256": "26371501163a88957701d9c4f4f6dbdc017c4b9ca3fb88cadc1b164c9334d565"
+  },
+  "src/fastplms/embeddings/storage.py": {
+    "size": 66427,
+    "sha256": "2091a59482370ed8830aa12cd8fde3d61e23a78368ee8267a89f8b7feb83cad3"
+  },
+  "src/fastplms/embeddings/types.py": {
+    "size": 6463,
+    "sha256": "c58f8c6a37a11a937c3f77b4e1617d5f213923d98ecaffddcdd283bd9dc42fe7"
+  },
+  "src/fastplms/models/__init__.py": {
+    "size": 336,
+    "sha256": "d3dd084f5e8fafcf2d0fe4a26e4ab9284d3f9414b1f9a5bd86e308a406447c43"
+  },
+  "src/fastplms/models/_diffusion_generation.py": {
+    "size": 20233,
+    "sha256": "1cadcca445ee9faa97f54cc1e47c30bb106d77344a7a91779b73f7517180b370"
+  },
+  "src/fastplms/models/_esm_rotary.py": {
+    "size": 4445,
+    "sha256": "b9b107633e9eb434b93a4f4cc0393bb8454d1a4ad67722038d177dffddd802b5"
+  },
+  "src/fastplms/models/ankh/__init__.py": {
+    "size": 0,
+    "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+  },
+  "src/fastplms/models/ankh/modeling_ankh.py": {
+    "size": 65086,
+    "sha256": "25f67d1e62da5bf3f2f9b1ce7bf032b6e0c4c3327f30eae05dd76037f9a08634"
+  },
+  "src/fastplms/models/boltz/__init__.py": {
+    "size": 347,
+    "sha256": "776dd9df11291750ddc4389f5f58fdd52c7e596db4b95c28129cb639f3903c43"
+  },
+  "src/fastplms/models/boltz/_pair_attention.py": {
+    "size": 1816,
+    "sha256": "736c4553adc2b871b04db325fbd2d8ee6f1c18bbb4ffacb440a5c2d76304169b"
+  },
+  "src/fastplms/models/boltz/cif_writer.py": {
+    "size": 5779,
+    "sha256": "6a6124240c4c9ffdc6de67df731c1eb05aed5dbaae60dd0192ab3b31c9556d42"
+  },
+  "src/fastplms/models/boltz/minimal_featurizer.py": {
+    "size": 38227,
+    "sha256": "c896a132c505e13d35aa51dd68eb78c37e873010d5c402f0ab78cf43bf9dd3cf"
+  },
+  "src/fastplms/models/boltz/minimal_structures.py": {
+    "size": 514,
+    "sha256": "41715893ae68fd75a6b47e7ef99c4db50eb460223d09717e5f6c074f39c59a68"
+  },
+  "src/fastplms/models/boltz/modeling_boltz2.py": {
+    "size": 46081,
+    "sha256": "6ff78cfcbe10cfdb2fdd2da15ed9f6a7e37f1bc6ed66b2e168506e14ccbb36f9"
+  },
+  "src/fastplms/models/boltz/vb_const.py": {
+    "size": 7587,
+    "sha256": "4b31e76f49710b19ce8ce9bb4cb2906bee79c000d1f0960e2440fd25ad9f967d"
+  },
+  "src/fastplms/models/boltz/vb_layers_attention.py": {
+    "size": 3797,
+    "sha256": "71918a961e16c2133b69274eea77e73d11325a79d2e117da452163606e0982c0"
+  },
+  "src/fastplms/models/boltz/vb_layers_attentionv2.py": {
+    "size": 2776,
+    "sha256": "50297a67887a95ba74bf583b7fb90c3e74d391118f484a39d8f419d6c0d43bb5"
+  },
+  "src/fastplms/models/boltz/vb_layers_confidence_utils.py": {
+    "size": 10427,
+    "sha256": "77099208f4bbd18b895ac1ef854ba1ee22762f64024037f95712c6f6b537b8fb"
+  },
+  "src/fastplms/models/boltz/vb_layers_dropout.py": {
+    "size": 1505,
+    "sha256": "311c1c9770c23df5148c066e8c8a054d6a32830c9800d46ba9f17e74670fb8cd"
+  },
+  "src/fastplms/models/boltz/vb_layers_initialize.py": {
+    "size": 3152,
+    "sha256": "c0e52df5833c3459761a4d042d7d3afff7e336cf4e8d3e66a59c6358c268e2c0"
+  },
+  "src/fastplms/models/boltz/vb_layers_outer_product_mean.py": {
+    "size": 4267,
+    "sha256": "107d37a5572322e45bb279f164dada9e9fbc8542a245ce65342727aed2bc7390"
+  },
+  "src/fastplms/models/boltz/vb_layers_pair_averaging.py": {
+    "size": 4487,
+    "sha256": "cbec19c03dada6185bd053d50b01fcbf7958a839449dda24d465d98412199806"
+  },
+  "src/fastplms/models/boltz/vb_layers_pairformer.py": {
+    "size": 11493,
+    "sha256": "8de7846d1ff203e88368ce9dd26bdb91c6150991994413b5ca173714e425ec56"
+  },
+  "src/fastplms/models/boltz/vb_layers_transition.py": {
+    "size": 3093,
+    "sha256": "0a1ce258ce88f1571937b4141fb94e39e700cb6e2538400c9468bc0db6ac6ad4"
+  },
+  "src/fastplms/models/boltz/vb_layers_triangular_mult.py": {
+    "size": 4753,
+    "sha256": "fc37d98cd6b0be23e497dce53a05332460f2fa37f782f9a948e25abc254942c7"
+  },
+  "src/fastplms/models/boltz/vb_loss_diffusionv2.py": {
+    "size": 6506,
+    "sha256": "8a596179bf54f47334bb7da5fb3383581b7a2c3db28879d7c42019a31f5395cd"
+  },
+  "src/fastplms/models/boltz/vb_modules_confidencev2.py": {
+    "size": 25062,
+    "sha256": "cfa10e8f10405b230bd764f702c0d39f17ab7b42386df0e59adc681467d1f365"
+  },
+  "src/fastplms/models/boltz/vb_modules_diffusion_conditioning.py": {
+    "size": 4873,
+    "sha256": "ab4a9e5a7ccbdac62ff3cc4e04b65188bd442d2ede036ca7971fbefded95990f"
+  },
+  "src/fastplms/models/boltz/vb_modules_diffusionv2.py": {
+    "size": 30705,
+    "sha256": "717e6475df080f5941804cfbdfb6a193d5ecd788ea9a01e0dbb073c65460663d"
+  },
+  "src/fastplms/models/boltz/vb_modules_encodersv2.py": {
+    "size": 25374,
+    "sha256": "97f0db310f5bbc07da9eee7cb1e6c1bcbe24bc6154add0de932a88b094928193"
+  },
+  "src/fastplms/models/boltz/vb_modules_transformersv2.py": {
+    "size": 10639,
+    "sha256": "b5a7d235fe6212a47be6cd7d0e9765bb4475c901d9cc79b199c153910e7ec282"
+  },
+  "src/fastplms/models/boltz/vb_modules_trunkv2.py": {
+    "size": 25162,
+    "sha256": "b4429c720b6f324335e6483222b438bc7f6b1ddbc46f9ba2e6180b96819252e9"
+  },
+  "src/fastplms/models/boltz/vb_modules_utils.py": {
+    "size": 11567,
+    "sha256": "9d7e416062733c40283a32d38ed547ad9b160d9e66c5d4e3ee179c6f0e7ff055"
+  },
+  "src/fastplms/models/boltz/vb_potentials_potentials.py": {
+    "size": 36675,
+    "sha256": "62f654f99407f87f24b1753354478f72b0833d5c302323234e800b0d35b48cc9"
+  },
+  "src/fastplms/models/boltz/vb_potentials_schedules.py": {
+    "size": 2391,
+    "sha256": "41c4e59b4af49532dd81e7275413eb31582257ce4af85e33c364394644fbc4ad"
+  },
+  "src/fastplms/models/boltz/vb_tri_attn_attention.py": {
+    "size": 4719,
+    "sha256": "96cf947c9d47ccabf104a8dc558cf1b3d94f946ee2b9bc4f90e0fea7e1c131bc"
+  },
+  "src/fastplms/models/boltz/vb_tri_attn_primitives.py": {
+    "size": 9812,
+    "sha256": "746538afff040a5de4dd1f93e35a3547e1d08692056dac137de858e4e58baecd"
+  },
+  "src/fastplms/models/boltz/vb_tri_attn_utils.py": {
+    "size": 11300,
+    "sha256": "c5fb4adf3110de5699a7c1f639003413b3f8f4a106bd7ae4a3f89486be75b35e"
+  },
+  "src/fastplms/models/classification_probe.py": {
+    "size": 20365,
+    "sha256": "5efe95feab4674174ac88d30f9e0659d6c0f8035851b5bc351f3738d479e93a9"
+  },
+  "src/fastplms/models/dplm/__init__.py": {
+    "size": 0,
+    "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+  },
+  "src/fastplms/models/dplm/modeling_dplm.py": {
+    "size": 55368,
+    "sha256": "9b7f1ffebf82aa23d7ad763ca910fa897c27b6b5401b9f04f925bde65a3d70a5"
+  },
+  "src/fastplms/models/dplm2/__init__.py": {
+    "size": 127,
+    "sha256": "cda00bad9b68061cd2b480863507bb33d9b307f96ae9c454ce26fed746e33776"
+  },
+  "src/fastplms/models/dplm2/modeling_dplm2.py": {
+    "size": 58263,
+    "sha256": "6d037e4170452dfe0fffa69659b09175c3a2b032c03e05647e2a5fba37f0daa2"
+  },
+  "src/fastplms/models/dplm2/tokenization_dplm2.py": {
+    "size": 3761,
+    "sha256": "b527a626251adc4496d2046a048ea89f5f9326efcbc74114d766fd5b0736cdf2"
+  },
+  "src/fastplms/models/e1/__init__.py": {
+    "size": 0,
+    "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+  },
+  "src/fastplms/models/e1/attention.py": {
+    "size": 17944,
+    "sha256": "0800c4279b9beb8f9692eb030f375045448fd9d0afc5acfcb08f6e3f5b734d12"
+  },
+  "src/fastplms/models/e1/cache.py": {
+    "size": 9913,
+    "sha256": "bbe4a04036d0dc04b1b8d7fc40f67c19862d9e43180988aba26a2c20c9c9adc6"
+  },
+  "src/fastplms/models/e1/modeling_e1.py": {
+    "size": 98837,
+    "sha256": "60373e76e01de527a15c17e7377b4f78b77bf6519f2845ab32e3060c6b39d099"
+  },
+  "src/fastplms/models/e1/preparation.py": {
+    "size": 10628,
+    "sha256": "aad61cdd8bbbec9f410f7d4c2b327a0dddc9e612e2e007d359f883f693ed2a24"
+  },
+  "src/fastplms/models/e1/retrieval.py": {
+    "size": 71281,
+    "sha256": "7702c46763ff242d423a890edde33867e2273e82dc0bde43f6d92debce9d5f08"
+  },
+  "src/fastplms/models/esm2/__init__.py": {
+    "size": 0,
+    "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+  },
+  "src/fastplms/models/esm2/modeling_fastesm.py": {
+    "size": 45755,
+    "sha256": "e40442e9c2479b052b79a0912f375ca22c56ad5aa0dd75137e9bfabec9b1cefc"
+  },
+  "src/fastplms/models/esm3/__init__.py": {
+    "size": 303,
+    "sha256": "a2a678dc996ce8238c456cb667a5d63a342e28df72553546c6a8f5893f8f2545"
+  },
+  "src/fastplms/models/esm3/modeling_esm3.py": {
+    "size": 114023,
+    "sha256": "590cbf9a34ca439913c0b7d8221e8aef35bfaf98d7de533cc22df76d7d141995"
+  },
+  "src/fastplms/models/esm_plusplus/__init__.py": {
+    "size": 0,
+    "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+  },
+  "src/fastplms/models/esm_plusplus/modeling_esm_plusplus.py": {
+    "size": 82069,
+    "sha256": "892ab6c3e69982713980ed83ecfb697c1842731b6415c9d0d448a1529942b0d2"
+  },
+  "src/fastplms/models/esm_plusplus/modeling_esm_plusplus_sae.py": {
+    "size": 9994,
+    "sha256": "a8bc37695c29f0a91597bc8c95ff0516615944ac7ee35d18e56c23ebcd52ab5d"
+  },
+  "src/fastplms/models/esmfold/__init__.py": {
+    "size": 0,
+    "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+  },
+  "src/fastplms/models/esmfold/modeling_fast_esmfold.py": {
+    "size": 45830,
+    "sha256": "142b2aeb311bd8bfb6a0fa3a911d0ea9aefac27692afdfb34549fce0ac8b37fc"
+  },
+  "src/fastplms/models/esmfold2/__init__.py": {
+    "size": 2030,
+    "sha256": "167872850136ffb473f639dddc2323099bc534efe10fdad9fe2a799e444c7a18"
+  },
+  "src/fastplms/models/esmfold2/attention.py": {
+    "size": 1650,
+    "sha256": "3112740d2d5a27f8879b274159fae930f6949e80cf015c3f8d8405769e2ab5d7"
+  },
+  "src/fastplms/models/esmfold2/configuration_esmfold2.py": {
+    "size": 12403,
+    "sha256": "fc375b356c4df1c1deec26abafac7534e23d0568c0af76c39b204d6e5aaef27d"
+  },
+  "src/fastplms/models/esmfold2/embedding.py": {
+    "size": 4409,
+    "sha256": "43c045ebf0502ce801d0f0abf04c7b53b85ba27e8c3eceb546a3c0b1c0581aa3"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_affine3d.py": {
+    "size": 24771,
+    "sha256": "7e5a109942e4e8c4f2a83281d2d8b83a04c7cefb7931b27eca6c146af47f2d85"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_aligner.py": {
+    "size": 3050,
+    "sha256": "0ac5f9bbfcb98dfa2967070f5f3c6e63b0d5f8dec08afe50ec0c6c14520e2798"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_atom_indexer.py": {
+    "size": 928,
+    "sha256": "388d11d06e45062aba55934c0bc32925998ed5d85525bec00bafd9d67b98dc6a"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_conformers.py": {
+    "size": 16121,
+    "sha256": "d5be3080a08f672a1f7d6a5d523cf1fe7d7559e7324faa5c735ccd78b4ddad35"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_constants.py": {
+    "size": 6060,
+    "sha256": "65f978329690b46c4a3cc9f4815fe439b1e355be03ef2a9134b83ab889958751"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_constants_esm3.py": {
+    "size": 2913,
+    "sha256": "6f9c8bbf0f80b6cd9ede136d142b51ff2b84f1b339cb6b6668c2669e8c2584b5"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_input_builder.py": {
+    "size": 6860,
+    "sha256": "3fccb115fa79ac88e5e2bb09a2b7273fbc1ae5ca540947eb27d1e827c46baa7b"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_metrics.py": {
+    "size": 10448,
+    "sha256": "a3674d794414181b94e5d42c80941c28740893cbc8f3f65a0eabcfd1f18ac7d1"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_misc.py": {
+    "size": 16193,
+    "sha256": "e79990024d597bdaaa093a90a342029a1cb044618d4935d7d1d12584fb560541"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_mmcif_parsing.py": {
+    "size": 16610,
+    "sha256": "8ed0fe1afdc15f148509f92f850707b5cb8e9eff019b46552ac7a83c04f3c9b4"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_molecular_complex.py": {
+    "size": 40861,
+    "sha256": "fbb5a616fd0a4335c21ea814cdec9c184815effd21521ff980e93ce0b1a86a1e"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_msa.py": {
+    "size": 20888,
+    "sha256": "55aaf57d3e0e983971102ae9582aece9e6fd4cc339aed672b61be999ff945087"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_msa_filter_sequences.py": {
+    "size": 4012,
+    "sha256": "964f888b71a41974f2ee172a93631c8f3c32f643e67d346ac04d5a27a29e58e5"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_normalize_coordinates.py": {
+    "size": 3030,
+    "sha256": "3b3c9854d58f7e498e7b1b6ec2ffed139233f54bb3abcb9b64edc82d1f8aefdc"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_output.py": {
+    "size": 7860,
+    "sha256": "eb2dba85fd9368b76d2c5e7c426cc51f4fc67ec9b16e6463dc3eee126db0d0cd"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_paired_msa.py": {
+    "size": 9426,
+    "sha256": "7c5147677d05c8c11023c71c7ee95ddc3cd629e95fbe6bb59a1df4cf56b8174e"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_parsing.py": {
+    "size": 3896,
+    "sha256": "9404c5d8514281712681c4bb2fbe694420e0b6612a361d1f0186d294e1f1fb5d"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_predicted_aligned_error.py": {
+    "size": 4889,
+    "sha256": "eae9a59a5da8d7e54b319619162c235c880666d475ff495cd14d015c0bfa22b1"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_prepare_input.py": {
+    "size": 40736,
+    "sha256": "b75323afe401531eb17d4c23454fa024448e0563f8f94ad7adc3f91522a7a27a"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_processor.py": {
+    "size": 13210,
+    "sha256": "de878f5a2165951535dd177de9eb8322f35308c612bba6f0363fb825c3d8e1a1"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_protein_chain.py": {
+    "size": 63543,
+    "sha256": "601b522c1c4d518e3751edede644e351ce9fff60229ca8029d2f69559f4a5812"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_protein_complex.py": {
+    "size": 52765,
+    "sha256": "cb68d3ad8491390961e95dcb7f0726a6d249666f95fc046f233c3d56aa0a9bd5"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_protein_structure.py": {
+    "size": 9884,
+    "sha256": "dddf87923bca888605cf84c89c11a24dcf6f500ec99bf6ad545faa5f9ca04998"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_residue_constants.py": {
+    "size": 32920,
+    "sha256": "9c2fe8f454300d7a676fc7160003232dd9ff926e2b48289853c2636ac9ba2d4b"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_sequential_dataclass.py": {
+    "size": 3929,
+    "sha256": "453657d127b6a78371f760fcf0cedfeaef8bb5024eeb7a1ffa66742323c279cf"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_system.py": {
+    "size": 1602,
+    "sha256": "5916250a3fa873983f06af668823c940813802a3db576bccf4e3343103564b7f"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_types.py": {
+    "size": 876,
+    "sha256": "2ab7e6fe0e228f6c579ed4aa96a097f9904bd3c11253434994be7b04952f35bb"
+  },
+  "src/fastplms/models/esmfold2/esmfold2_utils_types.py": {
+    "size": 1060,
+    "sha256": "d00f3cd100b0151859831cd187d7fdb49d3aeda631544205d2ca63bb7d710879"
+  },
+  "src/fastplms/models/esmfold2/modeling_esmfold2.py": {
+    "size": 87462,
+    "sha256": "3bbdbe7c502a1b61926e0b3b2aee148deabaa97537dbc58622e8e10cca76b9a7"
+  },
+  "src/fastplms/models/esmfold2/modeling_esmfold2_classification.py": {
+    "size": 9423,
+    "sha256": "5f46ab5bac2359bf541551967b2652545892467456042023819a7f5cb9036388"
+  },
+  "src/fastplms/models/esmfold2/modeling_esmfold2_common.py": {
+    "size": 125129,
+    "sha256": "ec43392fce2a5d4b4bf258c4239a7d690b79d2197fb1f21ceb1059e78951ba44"
+  },
+  "src/fastplms/models/esmfold2/modeling_esmfold2_experimental.py": {
+    "size": 49957,
+    "sha256": "9e28a4b6d6c4d31b7eabae377fe11f65f50fb2b6a1746146c1cd1ba0ca595bf6"
+  },
+  "src/fastplms/models/esmfold2/protein_utils.py": {
+    "size": 8093,
+    "sha256": "b7f40b19dc2c20e144b8fe3ccd0dbb2ec846526d015d6c8c922802d741be1f46"
+  },
+  "src/fastplms/models/esmfold2/reproducibility.py": {
+    "size": 1743,
+    "sha256": "18f13e266c9db67093fe756ca07bb93bb136a8e7b783a12d46bab82d0c69778d"
+  },
+  "src/fastplms/models/ttt.py": {
+    "size": 37758,
+    "sha256": "bbcd0d46cb2e1815f86cdb3d710fb89b2539a18d8ff03ce9306e88ca72d70309"
+  },
+  "src/fastplms/registry.py": {
+    "size": 68948,
+    "sha256": "c370419b34fc86a32c757b26601847be413a6b24384d435934d0431b99823d92"
+  },
+  "src/fastplms/runtime.py": {
+    "size": 2541,
+    "sha256": "9521c37fcd168bf9a4137277fb73672403ccf30d70d4845aa879fb22f42ddeb6"
+  },
+  "tools/confidence/__init__.py": {
+    "size": 58,
+    "sha256": "906ebf189faecc0e4db0667e06235ddedb5f55ccb8764007cefb94bebab4d1e2"
+  },
+  "tools/confidence/acceptance.py": {
+    "size": 11760,
+    "sha256": "8039c46a56731d560a50d6ea256f4b3241cd899049b40aaa23d01e5aa73246c6"
+  },
+  "tools/confidence/artifact_validation.py": {
+    "size": 4870,
+    "sha256": "39a762846cce12596318a84db9858ba4699763639a0c2d78a9e0a1c912b310ba"
+  },
+  "tools/confidence/budget.py": {
+    "size": 534,
+    "sha256": "5ff3392d24db6569c8104ac614f3318a1cdba57c09cc9b3207ebd7e936f974d2"
+  },
+  "tools/confidence/cache.py": {
+    "size": 24237,
+    "sha256": "0fb7cc37ffc340fd16c61f44cba3f7462593638aef3937f12fe8c4ff791001cf"
+  },
+  "tools/confidence/campaign.py": {
+    "size": 6460,
+    "sha256": "a4e91bfa6da4db22526a2ea21a671117d033c014158410c4678fa21593d8a821"
+  },
+  "tools/confidence/config.py": {
+    "size": 1708,
+    "sha256": "342e6fdf9cd8a7cd7f3f455e519b3ebd63132001b1c95e8ad4b8c5cf05077d9f"
+  },
+  "tools/confidence/data.py": {
+    "size": 33870,
+    "sha256": "acdbad582e458d05946b6403e2f42db59fe48a5b970dd01123be2951aea2bdaa"
+  },
+  "tools/confidence/evaluation.py": {
+    "size": 15661,
+    "sha256": "ef00a4ce9a27f2561689496e114cbc6d160bc186e6c1214cbb7ff1be23733992"
+  },
+  "tools/confidence/experiment_artifacts.py": {
+    "size": 22122,
+    "sha256": "91af0497832eca1ba75c1485406e1e7bae4f6552123aff70b2f9c4be9304edff"
+  },
+  "tools/confidence/host.py": {
+    "size": 24692,
+    "sha256": "846960995b4f93a1f1e7215214789a61a70cdc1d8daa3f5f6c8cc628f20c6929"
+  },
+  "tools/confidence/labels.py": {
+    "size": 11283,
+    "sha256": "6eb50c11860f6b379f257586b7918dcfe4ef60b1fb84268c1909ea95bafcf7dd"
+  },
+  "tools/confidence/launch.py": {
+    "size": 9672,
+    "sha256": "472445e07620269e367350ab897f33ca174d1e03cafbcc026c8e4496a9d0ebcc"
+  },
+  "tools/confidence/launch_v2.py": {
+    "size": 764,
+    "sha256": "98aa49e9864ec761de6649bdb0a42e3bf1a3b5e72affd700a02edb571b7e1c53"
+  },
+  "tools/confidence/metrics.py": {
+    "size": 15585,
+    "sha256": "cb9fca1f26616bc8ac0330976f8d52cede3b5ef61769221821e4de202e93b36a"
+  },
+  "tools/confidence/modal_app.py": {
+    "size": 11872,
+    "sha256": "bd543c788a3e07b76b368dec966ac62f41880437b8697fd443171d3bbd4c146b"
+  },
+  "tools/confidence/modal_v2.py": {
+    "size": 9453,
+    "sha256": "9ddfd097417b70aee0b85b580438eba6ebf7eafee0dfd9f620f259a79b1e14cf"
+  },
+  "tools/confidence/online_smoke.py": {
+    "size": 17889,
+    "sha256": "a95b72b4ba244a9289dbcfecfc3201d4c033b3e41c2d6fe18a3b0ffd5a9b8f0a"
+  },
+  "tools/confidence/online_training.py": {
+    "size": 32956,
+    "sha256": "9326012b780bd739841f930c7fb08431e1b615b334581376a006c9b7fa9d44a4"
+  },
+  "tools/confidence/packaging.py": {
+    "size": 8909,
+    "sha256": "efd50d289d0a35e6634428ad37ed0812c5a00607924fb3159796b95e5a70a9bb"
+  },
+  "tools/confidence/ranking.py": {
+    "size": 3677,
+    "sha256": "32db0f3f46d8dc7770ad8a280169ed8fb2888024dd0d66964c3d7f0ab97de578"
+  },
+  "tools/confidence/recompute.py": {
+    "size": 10462,
+    "sha256": "e19c11e77632e70ca0d4dd9eb66dff0a0e04e4a5bb4db36148e6532edc10e225"
+  },
+  "tools/confidence/release.py": {
+    "size": 8949,
+    "sha256": "3ea71eac204b6c8f3c8783894544a06cd8101b0d23c1c3e5e4b4735fcce25201"
+  },
+  "tools/confidence/rollouts.py": {
+    "size": 21348,
+    "sha256": "1dad3e3e0dca8d8aa56070efd7b23dd4ffefd4109aab33c2f05843e87f940f1d"
+  },
+  "tools/confidence/selection.py": {
+    "size": 1003,
+    "sha256": "dd0e9c87dd48f63159b997e801bb0595f1ebf5c9eaed1f5b2bab1a3543054cf1"
+  },
+  "tools/confidence/splits.py": {
+    "size": 5417,
+    "sha256": "3ea939c6b6621c3e6e3eea14a1a08c682936fbebcb4c84a31ede7318f30fdbf4"
+  },
+  "tools/confidence/ssh.py": {
+    "size": 7530,
+    "sha256": "e80d0904563e71c343742e31093ba812c173039ac255317caf471c1c069cf538"
+  },
+  "tools/confidence/structure_metrics.py": {
+    "size": 13711,
+    "sha256": "a0b8825b367d0112b5a5e8acd06e66441067b049bfe1932df9390ec92c26d71b"
+  },
+  "tools/confidence/target_pool.py": {
+    "size": 11433,
+    "sha256": "fee32a81939c31276fce9a6e2dedd68ade5b135eb3a3e345f02ec6f4d523377c"
+  },
+  "tools/confidence/target_splits.py": {
+    "size": 8602,
+    "sha256": "15dcec9e83cda07562231bcc13212d7bce47303c8e7c94d9297e2a814bd62946"
+  },
+  "tools/confidence/test_evaluation.py": {
+    "size": 16800,
+    "sha256": "6a9998a1e11d325c16b21ef47d3abdc89f2ec7a8a1d212994577191ef10fceca"
+  },
+  "tools/confidence/training.py": {
+    "size": 37010,
+    "sha256": "e87056dfcf26cd98b4c42b191154f8bafe63622d3574db2220d0cc1c32399069"
+  },
+  "tools/confidence/v2_analysis.py": {
+    "size": 9958,
+    "sha256": "d6c41100acacfad1922ad43aa9b453ffcead3c36876230b80ebe0ddbffa4121e"
+  },
+  "tools/confidence/v2_campaign.py": {
+    "size": 7959,
+    "sha256": "1af9e0b526b2e0b0dd2cfcb6317551782c8b8a7576662eb4c85dcaf286f387d8"
+  },
+  "tools/confidence/v2_records.py": {
+    "size": 2110,
+    "sha256": "57a5be646cc29637b36732bf3927115a8f879cf0d91d82b26d5b850628ae86da"
+  },
+  "tools/confidence/workflow.py": {
+    "size": 12886,
+    "sha256": "abe8624dd5b980dcac43864e19649a4058bfed8fb8207d9014b0f50decadb1db"
+  },
+  "tools/execution/__init__.py": {
+    "size": 77,
+    "sha256": "1aa67ededb225e478f19423c2e70deacfd00a4734d6116c8ccc6eafb4a6fd4f8"
+  },
+  "tools/execution/budget.py": {
+    "size": 5146,
+    "sha256": "7bde890c6dad647d23208460085f92b93d6f9e497a85b5cb0b6e1a5c33514534"
+  },
+  "tools/execution/pricing.py": {
+    "size": 611,
+    "sha256": "a1758c1a0df12cb08612c40167a9df87975abb2c170d227ccf775009dbfb3d80"
+  },
+  "tools/execution/source.py": {
+    "size": 6786,
+    "sha256": "2dd3694f5975f571db741084ac1d56b6dd693818ef323f013dae21e8bbde7339"
+  }
+}

confidence-v2/v2-reproduction-20260922/splits/split-report.json

@@ -0,0 +1,66 @@
+{
+  "status": "verified",
+  "targets_sha256": "f6b98315720fe663ac282c665ebf79b3996ad038d8a6034da39c5dc7af24f727",
+  "sequences": 106860,
+  "clusters": 35543,
+  "components": 22958,
+  "largest_components": [
+    {
+      "component": 31161,
+      "standard_targets": 187914
+    },
+    {
+      "component": 7588,
+      "standard_targets": 3104
+    },
+    {
+      "component": 29315,
+      "standard_targets": 2872
+    },
+    {
+      "component": 18136,
+      "standard_targets": 2511
+    },
+    {
+      "component": 35024,
+      "standard_targets": 2362
+    }
+  ],
+  "counts": {
+    "test/complex": 128,
+    "test/dimer_hetero": 96,
+    "test/dimer_homo": 96,
+    "test/long": 64,
+    "test/monomer_long": 64,
+    "test/monomer_medium": 64,
+    "test/monomer_short": 64,
+    "train/complex": 25504,
+    "train/dimer_hetero": 11300,
+    "train/dimer_homo": 36652,
+    "train/monomer_long": 31318,
+    "train/monomer_medium": 141576,
+    "train/monomer_short": 229619,
+    "unused/complex": 3661,
+    "unused/dimer_hetero": 1222,
+    "unused/dimer_homo": 2562,
+    "unused/long": 29669,
+    "unused/monomer_long": 2277,
+    "unused/monomer_medium": 8196,
+    "unused/monomer_short": 20690,
+    "validation/complex": 64,
+    "validation/dimer_hetero": 48,
+    "validation/dimer_homo": 48,
+    "validation/monomer_long": 32,
+    "validation/monomer_medium": 32,
+    "validation/monomer_short": 32
+  },
+  "train_targets": 475969,
+  "pilot_components_excluded_from_heldout": 1068,
+  "pilot_final_test_clusters_excluded_from_train": 146,
+  "mmseqs": {
+    "min_seq_id": 0.4,
+    "coverage": 0.8,
+    "cov_mode": 0
+  },
+  "seed": 20260917
+}

confidence-v2/v2-reproduction-20260922/splits/targets.parquet

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:f6b98315720fe663ac282c665ebf79b3996ad038d8a6034da39c5dc7af24f727
+size 184738720

confidence-v2/v2-reproduction-20260922/verification.json

@@ -0,0 +1,619 @@
+{
+  "status": "passed",
+  "returncode": 0,
+  "output": "........................................................................ [ 66%]\n....................................                                     [100%]\n=============================== warnings summary ===============================\ntests/unit/test_confidence_online_training.py::test_per_sample_ranking_terms_sum_to_the_joint_pairwise_gradient\n  /workspace/tests/unit/test_confidence_online_training.py:92: UserWarning: Converting a tensor with requires_grad=True to a scalar may lead to unexpected behavior.\n  Consider using tensor.detach() first. (Triggered internally at /__w/pytorch/pytorch/torch/csrc/autograd/generated/python_variable_methods.cpp:822.)\n    assert summed == pytest.approx(2 * float(joint))\n\ntests/unit/test_confidence_rollouts.py::test_symmetric_atom_labels_follow_the_prediction\n  /workspace/tools/confidence/rollouts.py:266: UserWarning: index_reduce() is in beta and the API may change at any time. (Triggered internally at /__w/pytorch/pytorch/aten/src/ATen/native/TensorAdvancedIndexing.cpp:1523.)\n    group_valid = torch.ones(num_groups, device=true.device).index_reduce_(0, group, pair_valid, \"amin\")  # (g,)\n\ntests/unit/test_confidence_test_evaluation.py::test_summary_reports_the_long_stratum_outside_the_overall_estimate\n  /usr/local/lib/python3.12/site-packages/numpy/lib/nanfunctions.py:1384: RuntimeWarning: All-NaN slice encountered\n    return _nanquantile_unchecked(\n\n-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html\n108 passed, 3 warnings in 22.03s\n",
+  "source_files": {
+    "src/fastplms/models.toml": {
+      "size": 83488,
+      "sha256": "0967a7805cd5ba107825a7dc473008d49c0334bd18714e1dfa9e51d0c42ee6f1"
+    },
+    "src/fastplms/__init__.py": {
+      "size": 1857,
+      "sha256": "8503e02debf24abc6d33c1913ff3eb9f245e63f7e62017e220d072c7393fdf2c"
+    },
+    "src/fastplms/attention/__init__.py": {
+      "size": 2259,
+      "sha256": "ae5c77f7293ae4a411fe1e57ac1e0ba69d47c077de8e46f6561f9af58ba2b5e2"
+    },
+    "src/fastplms/attention/_auto.py": {
+      "size": 7050,
+      "sha256": "d7adc2c3d9bb1a5b301e1a379ce28983f134ddbac9b44a3cf5bbf322cd7139a5"
+    },
+    "src/fastplms/attention/_core.py": {
+      "size": 35863,
+      "sha256": "3f3a09c590f566cb77d9586fd8ccff48496a67be0ace20e3db90165b54ffa07e"
+    },
+    "src/fastplms/attention/_kernel_lock.py": {
+      "size": 7063,
+      "sha256": "17adb859c994676b81df142e61d26ee5a723080c2a4fabc78c650b57300d51f8"
+    },
+    "src/fastplms/attention/interfaces.py": {
+      "size": 16976,
+      "sha256": "3b538e4b109f57b2a3a74cb1f0f7cbe8b43b6b6479f7161475cc1ec9bb260a08"
+    },
+    "src/fastplms/embeddings/__init__.py": {
+      "size": 1505,
+      "sha256": "cf0648de905a00ad16c0aece328eeb05f25739a4cf89b47b915e0f2b19c3ce26"
+    },
+    "src/fastplms/embeddings/batches.py": {
+      "size": 16175,
+      "sha256": "569693978dafddf585e45789b6ea9b45246c604def422f3c13dae54396503a25"
+    },
+    "src/fastplms/embeddings/identity.py": {
+      "size": 21198,
+      "sha256": "9508d14d2a997250e388dd94d2357eee28792e5da67509e917179160e627720d"
+    },
+    "src/fastplms/embeddings/inputs.py": {
+      "size": 9833,
+      "sha256": "b9c3f3eb228a6b21948afc141bd148d4d976cd4c142a9f180f36c33d6ff99599"
+    },
+    "src/fastplms/embeddings/output.py": {
+      "size": 9082,
+      "sha256": "1b86275772880de0f4ee51d7a125a877dab086cf56a4ec257dce7b9805cc8289"
+    },
+    "src/fastplms/embeddings/pooling.py": {
+      "size": 9876,
+      "sha256": "a393e78523e1fcb7362755619a580ea443814a410a995d90bd2d90f5b1d57bd9"
+    },
+    "src/fastplms/embeddings/runner.py": {
+      "size": 18432,
+      "sha256": "26371501163a88957701d9c4f4f6dbdc017c4b9ca3fb88cadc1b164c9334d565"
+    },
+    "src/fastplms/embeddings/storage.py": {
+      "size": 66427,
+      "sha256": "2091a59482370ed8830aa12cd8fde3d61e23a78368ee8267a89f8b7feb83cad3"
+    },
+    "src/fastplms/embeddings/types.py": {
+      "size": 6463,
+      "sha256": "c58f8c6a37a11a937c3f77b4e1617d5f213923d98ecaffddcdd283bd9dc42fe7"
+    },
+    "src/fastplms/models/__init__.py": {
+      "size": 336,
+      "sha256": "d3dd084f5e8fafcf2d0fe4a26e4ab9284d3f9414b1f9a5bd86e308a406447c43"
+    },
+    "src/fastplms/models/_diffusion_generation.py": {
+      "size": 20233,
+      "sha256": "1cadcca445ee9faa97f54cc1e47c30bb106d77344a7a91779b73f7517180b370"
+    },
+    "src/fastplms/models/_esm_rotary.py": {
+      "size": 4445,
+      "sha256": "b9b107633e9eb434b93a4f4cc0393bb8454d1a4ad67722038d177dffddd802b5"
+    },
+    "src/fastplms/models/ankh/__init__.py": {
+      "size": 0,
+      "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+    },
+    "src/fastplms/models/ankh/modeling_ankh.py": {
+      "size": 65086,
+      "sha256": "25f67d1e62da5bf3f2f9b1ce7bf032b6e0c4c3327f30eae05dd76037f9a08634"
+    },
+    "src/fastplms/models/boltz/__init__.py": {
+      "size": 347,
+      "sha256": "776dd9df11291750ddc4389f5f58fdd52c7e596db4b95c28129cb639f3903c43"
+    },
+    "src/fastplms/models/boltz/_pair_attention.py": {
+      "size": 1816,
+      "sha256": "736c4553adc2b871b04db325fbd2d8ee6f1c18bbb4ffacb440a5c2d76304169b"
+    },
+    "src/fastplms/models/boltz/cif_writer.py": {
+      "size": 5779,
+      "sha256": "6a6124240c4c9ffdc6de67df731c1eb05aed5dbaae60dd0192ab3b31c9556d42"
+    },
+    "src/fastplms/models/boltz/minimal_featurizer.py": {
+      "size": 38227,
+      "sha256": "c896a132c505e13d35aa51dd68eb78c37e873010d5c402f0ab78cf43bf9dd3cf"
+    },
+    "src/fastplms/models/boltz/minimal_structures.py": {
+      "size": 514,
+      "sha256": "41715893ae68fd75a6b47e7ef99c4db50eb460223d09717e5f6c074f39c59a68"
+    },
+    "src/fastplms/models/boltz/modeling_boltz2.py": {
+      "size": 46081,
+      "sha256": "6ff78cfcbe10cfdb2fdd2da15ed9f6a7e37f1bc6ed66b2e168506e14ccbb36f9"
+    },
+    "src/fastplms/models/boltz/vb_const.py": {
+      "size": 7587,
+      "sha256": "4b31e76f49710b19ce8ce9bb4cb2906bee79c000d1f0960e2440fd25ad9f967d"
+    },
+    "src/fastplms/models/boltz/vb_layers_attention.py": {
+      "size": 3797,
+      "sha256": "71918a961e16c2133b69274eea77e73d11325a79d2e117da452163606e0982c0"
+    },
+    "src/fastplms/models/boltz/vb_layers_attentionv2.py": {
+      "size": 2776,
+      "sha256": "50297a67887a95ba74bf583b7fb90c3e74d391118f484a39d8f419d6c0d43bb5"
+    },
+    "src/fastplms/models/boltz/vb_layers_confidence_utils.py": {
+      "size": 10427,
+      "sha256": "77099208f4bbd18b895ac1ef854ba1ee22762f64024037f95712c6f6b537b8fb"
+    },
+    "src/fastplms/models/boltz/vb_layers_dropout.py": {
+      "size": 1505,
+      "sha256": "311c1c9770c23df5148c066e8c8a054d6a32830c9800d46ba9f17e74670fb8cd"
+    },
+    "src/fastplms/models/boltz/vb_layers_initialize.py": {
+      "size": 3152,
+      "sha256": "c0e52df5833c3459761a4d042d7d3afff7e336cf4e8d3e66a59c6358c268e2c0"
+    },
+    "src/fastplms/models/boltz/vb_layers_outer_product_mean.py": {
+      "size": 4267,
+      "sha256": "107d37a5572322e45bb279f164dada9e9fbc8542a245ce65342727aed2bc7390"
+    },
+    "src/fastplms/models/boltz/vb_layers_pair_averaging.py": {
+      "size": 4487,
+      "sha256": "cbec19c03dada6185bd053d50b01fcbf7958a839449dda24d465d98412199806"
+    },
+    "src/fastplms/models/boltz/vb_layers_pairformer.py": {
+      "size": 11493,
+      "sha256": "8de7846d1ff203e88368ce9dd26bdb91c6150991994413b5ca173714e425ec56"
+    },
+    "src/fastplms/models/boltz/vb_layers_transition.py": {
+      "size": 3093,
+      "sha256": "0a1ce258ce88f1571937b4141fb94e39e700cb6e2538400c9468bc0db6ac6ad4"
+    },
+    "src/fastplms/models/boltz/vb_layers_triangular_mult.py": {
+      "size": 4753,
+      "sha256": "fc37d98cd6b0be23e497dce53a05332460f2fa37f782f9a948e25abc254942c7"
+    },
+    "src/fastplms/models/boltz/vb_loss_diffusionv2.py": {
+      "size": 6506,
+      "sha256": "8a596179bf54f47334bb7da5fb3383581b7a2c3db28879d7c42019a31f5395cd"
+    },
+    "src/fastplms/models/boltz/vb_modules_confidencev2.py": {
+      "size": 25062,
+      "sha256": "cfa10e8f10405b230bd764f702c0d39f17ab7b42386df0e59adc681467d1f365"
+    },
+    "src/fastplms/models/boltz/vb_modules_diffusion_conditioning.py": {
+      "size": 4873,
+      "sha256": "ab4a9e5a7ccbdac62ff3cc4e04b65188bd442d2ede036ca7971fbefded95990f"
+    },
+    "src/fastplms/models/boltz/vb_modules_diffusionv2.py": {
+      "size": 30705,
+      "sha256": "717e6475df080f5941804cfbdfb6a193d5ecd788ea9a01e0dbb073c65460663d"
+    },
+    "src/fastplms/models/boltz/vb_modules_encodersv2.py": {
+      "size": 25374,
+      "sha256": "97f0db310f5bbc07da9eee7cb1e6c1bcbe24bc6154add0de932a88b094928193"
+    },
+    "src/fastplms/models/boltz/vb_modules_transformersv2.py": {
+      "size": 10639,
+      "sha256": "b5a7d235fe6212a47be6cd7d0e9765bb4475c901d9cc79b199c153910e7ec282"
+    },
+    "src/fastplms/models/boltz/vb_modules_trunkv2.py": {
+      "size": 25162,
+      "sha256": "b4429c720b6f324335e6483222b438bc7f6b1ddbc46f9ba2e6180b96819252e9"
+    },
+    "src/fastplms/models/boltz/vb_modules_utils.py": {
+      "size": 11567,
+      "sha256": "9d7e416062733c40283a32d38ed547ad9b160d9e66c5d4e3ee179c6f0e7ff055"
+    },
+    "src/fastplms/models/boltz/vb_potentials_potentials.py": {
+      "size": 36675,
+      "sha256": "62f654f99407f87f24b1753354478f72b0833d5c302323234e800b0d35b48cc9"
+    },
+    "src/fastplms/models/boltz/vb_potentials_schedules.py": {
+      "size": 2391,
+      "sha256": "41c4e59b4af49532dd81e7275413eb31582257ce4af85e33c364394644fbc4ad"
+    },
+    "src/fastplms/models/boltz/vb_tri_attn_attention.py": {
+      "size": 4719,
+      "sha256": "96cf947c9d47ccabf104a8dc558cf1b3d94f946ee2b9bc4f90e0fea7e1c131bc"
+    },
+    "src/fastplms/models/boltz/vb_tri_attn_primitives.py": {
+      "size": 9812,
+      "sha256": "746538afff040a5de4dd1f93e35a3547e1d08692056dac137de858e4e58baecd"
+    },
+    "src/fastplms/models/boltz/vb_tri_attn_utils.py": {
+      "size": 11300,
+      "sha256": "c5fb4adf3110de5699a7c1f639003413b3f8f4a106bd7ae4a3f89486be75b35e"
+    },
+    "src/fastplms/models/classification_probe.py": {
+      "size": 20365,
+      "sha256": "5efe95feab4674174ac88d30f9e0659d6c0f8035851b5bc351f3738d479e93a9"
+    },
+    "src/fastplms/models/dplm/__init__.py": {
+      "size": 0,
+      "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+    },
+    "src/fastplms/models/dplm/modeling_dplm.py": {
+      "size": 55368,
+      "sha256": "9b7f1ffebf82aa23d7ad763ca910fa897c27b6b5401b9f04f925bde65a3d70a5"
+    },
+    "src/fastplms/models/dplm2/__init__.py": {
+      "size": 127,
+      "sha256": "cda00bad9b68061cd2b480863507bb33d9b307f96ae9c454ce26fed746e33776"
+    },
+    "src/fastplms/models/dplm2/modeling_dplm2.py": {
+      "size": 58263,
+      "sha256": "6d037e4170452dfe0fffa69659b09175c3a2b032c03e05647e2a5fba37f0daa2"
+    },
+    "src/fastplms/models/dplm2/tokenization_dplm2.py": {
+      "size": 3761,
+      "sha256": "b527a626251adc4496d2046a048ea89f5f9326efcbc74114d766fd5b0736cdf2"
+    },
+    "src/fastplms/models/e1/__init__.py": {
+      "size": 0,
+      "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+    },
+    "src/fastplms/models/e1/attention.py": {
+      "size": 17944,
+      "sha256": "0800c4279b9beb8f9692eb030f375045448fd9d0afc5acfcb08f6e3f5b734d12"
+    },
+    "src/fastplms/models/e1/cache.py": {
+      "size": 9913,
+      "sha256": "bbe4a04036d0dc04b1b8d7fc40f67c19862d9e43180988aba26a2c20c9c9adc6"
+    },
+    "src/fastplms/models/e1/modeling_e1.py": {
+      "size": 98837,
+      "sha256": "60373e76e01de527a15c17e7377b4f78b77bf6519f2845ab32e3060c6b39d099"
+    },
+    "src/fastplms/models/e1/preparation.py": {
+      "size": 10628,
+      "sha256": "aad61cdd8bbbec9f410f7d4c2b327a0dddc9e612e2e007d359f883f693ed2a24"
+    },
+    "src/fastplms/models/e1/retrieval.py": {
+      "size": 71281,
+      "sha256": "7702c46763ff242d423a890edde33867e2273e82dc0bde43f6d92debce9d5f08"
+    },
+    "src/fastplms/models/esm2/__init__.py": {
+      "size": 0,
+      "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+    },
+    "src/fastplms/models/esm2/modeling_fastesm.py": {
+      "size": 45755,
+      "sha256": "e40442e9c2479b052b79a0912f375ca22c56ad5aa0dd75137e9bfabec9b1cefc"
+    },
+    "src/fastplms/models/esm3/__init__.py": {
+      "size": 303,
+      "sha256": "a2a678dc996ce8238c456cb667a5d63a342e28df72553546c6a8f5893f8f2545"
+    },
+    "src/fastplms/models/esm3/modeling_esm3.py": {
+      "size": 114023,
+      "sha256": "590cbf9a34ca439913c0b7d8221e8aef35bfaf98d7de533cc22df76d7d141995"
+    },
+    "src/fastplms/models/esm_plusplus/__init__.py": {
+      "size": 0,
+      "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+    },
+    "src/fastplms/models/esm_plusplus/modeling_esm_plusplus.py": {
+      "size": 82069,
+      "sha256": "892ab6c3e69982713980ed83ecfb697c1842731b6415c9d0d448a1529942b0d2"
+    },
+    "src/fastplms/models/esm_plusplus/modeling_esm_plusplus_sae.py": {
+      "size": 9994,
+      "sha256": "a8bc37695c29f0a91597bc8c95ff0516615944ac7ee35d18e56c23ebcd52ab5d"
+    },
+    "src/fastplms/models/esmfold/__init__.py": {
+      "size": 0,
+      "sha256": "e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855"
+    },
+    "src/fastplms/models/esmfold/modeling_fast_esmfold.py": {
+      "size": 45830,
+      "sha256": "142b2aeb311bd8bfb6a0fa3a911d0ea9aefac27692afdfb34549fce0ac8b37fc"
+    },
+    "src/fastplms/models/esmfold2/__init__.py": {
+      "size": 2030,
+      "sha256": "167872850136ffb473f639dddc2323099bc534efe10fdad9fe2a799e444c7a18"
+    },
+    "src/fastplms/models/esmfold2/attention.py": {
+      "size": 1650,
+      "sha256": "3112740d2d5a27f8879b274159fae930f6949e80cf015c3f8d8405769e2ab5d7"
+    },
+    "src/fastplms/models/esmfold2/configuration_esmfold2.py": {
+      "size": 12403,
+      "sha256": "fc375b356c4df1c1deec26abafac7534e23d0568c0af76c39b204d6e5aaef27d"
+    },
+    "src/fastplms/models/esmfold2/embedding.py": {
+      "size": 4409,
+      "sha256": "43c045ebf0502ce801d0f0abf04c7b53b85ba27e8c3eceb546a3c0b1c0581aa3"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_affine3d.py": {
+      "size": 24771,
+      "sha256": "7e5a109942e4e8c4f2a83281d2d8b83a04c7cefb7931b27eca6c146af47f2d85"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_aligner.py": {
+      "size": 3050,
+      "sha256": "0ac5f9bbfcb98dfa2967070f5f3c6e63b0d5f8dec08afe50ec0c6c14520e2798"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_atom_indexer.py": {
+      "size": 928,
+      "sha256": "388d11d06e45062aba55934c0bc32925998ed5d85525bec00bafd9d67b98dc6a"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_conformers.py": {
+      "size": 16121,
+      "sha256": "d5be3080a08f672a1f7d6a5d523cf1fe7d7559e7324faa5c735ccd78b4ddad35"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_constants.py": {
+      "size": 6060,
+      "sha256": "65f978329690b46c4a3cc9f4815fe439b1e355be03ef2a9134b83ab889958751"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_constants_esm3.py": {
+      "size": 2913,
+      "sha256": "6f9c8bbf0f80b6cd9ede136d142b51ff2b84f1b339cb6b6668c2669e8c2584b5"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_input_builder.py": {
+      "size": 6860,
+      "sha256": "3fccb115fa79ac88e5e2bb09a2b7273fbc1ae5ca540947eb27d1e827c46baa7b"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_metrics.py": {
+      "size": 10448,
+      "sha256": "a3674d794414181b94e5d42c80941c28740893cbc8f3f65a0eabcfd1f18ac7d1"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_misc.py": {
+      "size": 16193,
+      "sha256": "e79990024d597bdaaa093a90a342029a1cb044618d4935d7d1d12584fb560541"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_mmcif_parsing.py": {
+      "size": 16610,
+      "sha256": "8ed0fe1afdc15f148509f92f850707b5cb8e9eff019b46552ac7a83c04f3c9b4"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_molecular_complex.py": {
+      "size": 40861,
+      "sha256": "fbb5a616fd0a4335c21ea814cdec9c184815effd21521ff980e93ce0b1a86a1e"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_msa.py": {
+      "size": 20888,
+      "sha256": "55aaf57d3e0e983971102ae9582aece9e6fd4cc339aed672b61be999ff945087"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_msa_filter_sequences.py": {
+      "size": 4012,
+      "sha256": "964f888b71a41974f2ee172a93631c8f3c32f643e67d346ac04d5a27a29e58e5"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_normalize_coordinates.py": {
+      "size": 3030,
+      "sha256": "3b3c9854d58f7e498e7b1b6ec2ffed139233f54bb3abcb9b64edc82d1f8aefdc"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_output.py": {
+      "size": 7860,
+      "sha256": "eb2dba85fd9368b76d2c5e7c426cc51f4fc67ec9b16e6463dc3eee126db0d0cd"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_paired_msa.py": {
+      "size": 9426,
+      "sha256": "7c5147677d05c8c11023c71c7ee95ddc3cd629e95fbe6bb59a1df4cf56b8174e"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_parsing.py": {
+      "size": 3896,
+      "sha256": "9404c5d8514281712681c4bb2fbe694420e0b6612a361d1f0186d294e1f1fb5d"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_predicted_aligned_error.py": {
+      "size": 4889,
+      "sha256": "eae9a59a5da8d7e54b319619162c235c880666d475ff495cd14d015c0bfa22b1"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_prepare_input.py": {
+      "size": 40736,
+      "sha256": "b75323afe401531eb17d4c23454fa024448e0563f8f94ad7adc3f91522a7a27a"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_processor.py": {
+      "size": 13210,
+      "sha256": "de878f5a2165951535dd177de9eb8322f35308c612bba6f0363fb825c3d8e1a1"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_protein_chain.py": {
+      "size": 63543,
+      "sha256": "601b522c1c4d518e3751edede644e351ce9fff60229ca8029d2f69559f4a5812"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_protein_complex.py": {
+      "size": 52765,
+      "sha256": "cb68d3ad8491390961e95dcb7f0726a6d249666f95fc046f233c3d56aa0a9bd5"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_protein_structure.py": {
+      "size": 9884,
+      "sha256": "dddf87923bca888605cf84c89c11a24dcf6f500ec99bf6ad545faa5f9ca04998"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_residue_constants.py": {
+      "size": 32920,
+      "sha256": "9c2fe8f454300d7a676fc7160003232dd9ff926e2b48289853c2636ac9ba2d4b"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_sequential_dataclass.py": {
+      "size": 3929,
+      "sha256": "453657d127b6a78371f760fcf0cedfeaef8bb5024eeb7a1ffa66742323c279cf"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_system.py": {
+      "size": 1602,
+      "sha256": "5916250a3fa873983f06af668823c940813802a3db576bccf4e3343103564b7f"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_types.py": {
+      "size": 876,
+      "sha256": "2ab7e6fe0e228f6c579ed4aa96a097f9904bd3c11253434994be7b04952f35bb"
+    },
+    "src/fastplms/models/esmfold2/esmfold2_utils_types.py": {
+      "size": 1060,
+      "sha256": "d00f3cd100b0151859831cd187d7fdb49d3aeda631544205d2ca63bb7d710879"
+    },
+    "src/fastplms/models/esmfold2/modeling_esmfold2.py": {
+      "size": 87462,
+      "sha256": "3bbdbe7c502a1b61926e0b3b2aee148deabaa97537dbc58622e8e10cca76b9a7"
+    },
+    "src/fastplms/models/esmfold2/modeling_esmfold2_classification.py": {
+      "size": 9423,
+      "sha256": "5f46ab5bac2359bf541551967b2652545892467456042023819a7f5cb9036388"
+    },
+    "src/fastplms/models/esmfold2/modeling_esmfold2_common.py": {
+      "size": 125129,
+      "sha256": "ec43392fce2a5d4b4bf258c4239a7d690b79d2197fb1f21ceb1059e78951ba44"
+    },
+    "src/fastplms/models/esmfold2/modeling_esmfold2_experimental.py": {
+      "size": 49957,
+      "sha256": "9e28a4b6d6c4d31b7eabae377fe11f65f50fb2b6a1746146c1cd1ba0ca595bf6"
+    },
+    "src/fastplms/models/esmfold2/protein_utils.py": {
+      "size": 8093,
+      "sha256": "b7f40b19dc2c20e144b8fe3ccd0dbb2ec846526d015d6c8c922802d741be1f46"
+    },
+    "src/fastplms/models/esmfold2/reproducibility.py": {
+      "size": 1743,
+      "sha256": "18f13e266c9db67093fe756ca07bb93bb136a8e7b783a12d46bab82d0c69778d"
+    },
+    "src/fastplms/models/ttt.py": {
+      "size": 37758,
+      "sha256": "bbcd0d46cb2e1815f86cdb3d710fb89b2539a18d8ff03ce9306e88ca72d70309"
+    },
+    "src/fastplms/registry.py": {
+      "size": 68948,
+      "sha256": "c370419b34fc86a32c757b26601847be413a6b24384d435934d0431b99823d92"
+    },
+    "src/fastplms/runtime.py": {
+      "size": 2541,
+      "sha256": "9521c37fcd168bf9a4137277fb73672403ccf30d70d4845aa879fb22f42ddeb6"
+    },
+    "tools/confidence/__init__.py": {
+      "size": 58,
+      "sha256": "906ebf189faecc0e4db0667e06235ddedb5f55ccb8764007cefb94bebab4d1e2"
+    },
+    "tools/confidence/acceptance.py": {
+      "size": 11760,
+      "sha256": "8039c46a56731d560a50d6ea256f4b3241cd899049b40aaa23d01e5aa73246c6"
+    },
+    "tools/confidence/artifact_validation.py": {
+      "size": 4870,
+      "sha256": "39a762846cce12596318a84db9858ba4699763639a0c2d78a9e0a1c912b310ba"
+    },
+    "tools/confidence/budget.py": {
+      "size": 534,
+      "sha256": "5ff3392d24db6569c8104ac614f3318a1cdba57c09cc9b3207ebd7e936f974d2"
+    },
+    "tools/confidence/cache.py": {
+      "size": 24237,
+      "sha256": "0fb7cc37ffc340fd16c61f44cba3f7462593638aef3937f12fe8c4ff791001cf"
+    },
+    "tools/confidence/campaign.py": {
+      "size": 6460,
+      "sha256": "a4e91bfa6da4db22526a2ea21a671117d033c014158410c4678fa21593d8a821"
+    },
+    "tools/confidence/config.py": {
+      "size": 1708,
+      "sha256": "342e6fdf9cd8a7cd7f3f455e519b3ebd63132001b1c95e8ad4b8c5cf05077d9f"
+    },
+    "tools/confidence/data.py": {
+      "size": 33870,
+      "sha256": "acdbad582e458d05946b6403e2f42db59fe48a5b970dd01123be2951aea2bdaa"
+    },
+    "tools/confidence/evaluation.py": {
+      "size": 15661,
+      "sha256": "ef00a4ce9a27f2561689496e114cbc6d160bc186e6c1214cbb7ff1be23733992"
+    },
+    "tools/confidence/experiment_artifacts.py": {
+      "size": 22122,
+      "sha256": "91af0497832eca1ba75c1485406e1e7bae4f6552123aff70b2f9c4be9304edff"
+    },
+    "tools/confidence/host.py": {
+      "size": 24692,
+      "sha256": "846960995b4f93a1f1e7215214789a61a70cdc1d8daa3f5f6c8cc628f20c6929"
+    },
+    "tools/confidence/labels.py": {
+      "size": 11283,
+      "sha256": "6eb50c11860f6b379f257586b7918dcfe4ef60b1fb84268c1909ea95bafcf7dd"
+    },
+    "tools/confidence/launch.py": {
+      "size": 9672,
+      "sha256": "472445e07620269e367350ab897f33ca174d1e03cafbcc026c8e4496a9d0ebcc"
+    },
+    "tools/confidence/launch_v2.py": {
+      "size": 764,
+      "sha256": "98aa49e9864ec761de6649bdb0a42e3bf1a3b5e72affd700a02edb571b7e1c53"
+    },
+    "tools/confidence/metrics.py": {
+      "size": 15585,
+      "sha256": "cb9fca1f26616bc8ac0330976f8d52cede3b5ef61769221821e4de202e93b36a"
+    },
+    "tools/confidence/modal_app.py": {
+      "size": 11872,
+      "sha256": "bd543c788a3e07b76b368dec966ac62f41880437b8697fd443171d3bbd4c146b"
+    },
+    "tools/confidence/modal_v2.py": {
+      "size": 9453,
+      "sha256": "9ddfd097417b70aee0b85b580438eba6ebf7eafee0dfd9f620f259a79b1e14cf"
+    },
+    "tools/confidence/online_smoke.py": {
+      "size": 17889,
+      "sha256": "a95b72b4ba244a9289dbcfecfc3201d4c033b3e41c2d6fe18a3b0ffd5a9b8f0a"
+    },
+    "tools/confidence/online_training.py": {
+      "size": 32956,
+      "sha256": "9326012b780bd739841f930c7fb08431e1b615b334581376a006c9b7fa9d44a4"
+    },
+    "tools/confidence/packaging.py": {
+      "size": 8909,
+      "sha256": "efd50d289d0a35e6634428ad37ed0812c5a00607924fb3159796b95e5a70a9bb"
+    },
+    "tools/confidence/ranking.py": {
+      "size": 3677,
+      "sha256": "32db0f3f46d8dc7770ad8a280169ed8fb2888024dd0d66964c3d7f0ab97de578"
+    },
+    "tools/confidence/recompute.py": {
+      "size": 10462,
+      "sha256": "e19c11e77632e70ca0d4dd9eb66dff0a0e04e4a5bb4db36148e6532edc10e225"
+    },
+    "tools/confidence/release.py": {
+      "size": 8949,
+      "sha256": "3ea71eac204b6c8f3c8783894544a06cd8101b0d23c1c3e5e4b4735fcce25201"
+    },
+    "tools/confidence/rollouts.py": {
+      "size": 21348,
+      "sha256": "1dad3e3e0dca8d8aa56070efd7b23dd4ffefd4109aab33c2f05843e87f940f1d"
+    },
+    "tools/confidence/selection.py": {
+      "size": 1003,
+      "sha256": "dd0e9c87dd48f63159b997e801bb0595f1ebf5c9eaed1f5b2bab1a3543054cf1"
+    },
+    "tools/confidence/splits.py": {
+      "size": 5417,
+      "sha256": "3ea939c6b6621c3e6e3eea14a1a08c682936fbebcb4c84a31ede7318f30fdbf4"
+    },
+    "tools/confidence/ssh.py": {
+      "size": 7530,
+      "sha256": "e80d0904563e71c343742e31093ba812c173039ac255317caf471c1c069cf538"
+    },
+    "tools/confidence/structure_metrics.py": {
+      "size": 13711,
+      "sha256": "a0b8825b367d0112b5a5e8acd06e66441067b049bfe1932df9390ec92c26d71b"
+    },
+    "tools/confidence/target_pool.py": {
+      "size": 11433,
+      "sha256": "fee32a81939c31276fce9a6e2dedd68ade5b135eb3a3e345f02ec6f4d523377c"
+    },
+    "tools/confidence/target_splits.py": {
+      "size": 8602,
+      "sha256": "15dcec9e83cda07562231bcc13212d7bce47303c8e7c94d9297e2a814bd62946"
+    },
+    "tools/confidence/test_evaluation.py": {
+      "size": 16800,
+      "sha256": "6a9998a1e11d325c16b21ef47d3abdc89f2ec7a8a1d212994577191ef10fceca"
+    },
+    "tools/confidence/training.py": {
+      "size": 37010,
+      "sha256": "e87056dfcf26cd98b4c42b191154f8bafe63622d3574db2220d0cc1c32399069"
+    },
+    "tools/confidence/v2_analysis.py": {
+      "size": 9958,
+      "sha256": "d6c41100acacfad1922ad43aa9b453ffcead3c36876230b80ebe0ddbffa4121e"
+    },
+    "tools/confidence/v2_campaign.py": {
+      "size": 7959,
+      "sha256": "1af9e0b526b2e0b0dd2cfcb6317551782c8b8a7576662eb4c85dcaf286f387d8"
+    },
+    "tools/confidence/v2_records.py": {
+      "size": 2110,
+      "sha256": "57a5be646cc29637b36732bf3927115a8f879cf0d91d82b26d5b850628ae86da"
+    },
+    "tools/confidence/workflow.py": {
+      "size": 12886,
+      "sha256": "abe8624dd5b980dcac43864e19649a4058bfed8fb8207d9014b0f50decadb1db"
+    },
+    "tools/execution/__init__.py": {
+      "size": 77,
+      "sha256": "1aa67ededb225e478f19423c2e70deacfd00a4734d6116c8ccc6eafb4a6fd4f8"
+    },
+    "tools/execution/budget.py": {
+      "size": 5146,
+      "sha256": "7bde890c6dad647d23208460085f92b93d6f9e497a85b5cb0b6e1a5c33514534"
+    },
+    "tools/execution/pricing.py": {
+      "size": 611,
+      "sha256": "a1758c1a0df12cb08612c40167a9df87975abb2c170d227ccf775009dbfb3d80"
+    },
+    "tools/execution/source.py": {
+      "size": 6786,
+      "sha256": "2dd3694f5975f571db741084ac1d56b6dd693818ef323f013dae21e8bbde7339"
+    }
+  }
+}