lhallee commited on
Commit
0fcdc05
·
verified ·
1 Parent(s): 6cc35b0

Update FastPLMs runtime files

Browse files

Add-only FastPLMs files-only publication. Checkpoint weights and complete-artifact attestations are unchanged.

README.md CHANGED
@@ -22,7 +22,7 @@ Install FastPLMs from the exact source revision paired with this model card:
22
 
23
  ```bash
24
  python -m pip install \
25
- "fastplms[structure] @ git+https://github.com/Synthyra/FastPLMs.git@1b9ce023f1e06571cf3e6324be0610ffa53e0a4a"
26
  ```
27
 
28
  Python 3.11-3.14, PyTorch 2.13, and Transformers 5.13 are required. Structure inference requires the `structure` extra and a CUDA device for the published execution contract. The current validated release target is the exact NVIDIA GH200 on Linux aarch64; Linux x86-64, CPU-only, Windows, and macOS structure runs are not current release evidence. The Hub quick start below requires network
@@ -187,7 +187,7 @@ and sequence panel. Pending cells are not performance or parity claims.
187
  ## Hash-pinned CCD runtime asset
188
 
189
  Structure preparation requires `ccd.pkl` from
190
- `biohub/ESMFold2@1ebf0e3481a5184eb6171d40615c79e384b48796`. The manifest pins
191
  its 417,306,584-byte size and SHA-256
192
  `9ff44b1927c6b9198e38ffe0928706827a09a350c15530beeeabebfa88038fc5`
193
  under MIT terms. This is a trusted-deserialization boundary: FastPLMs only
@@ -233,14 +233,14 @@ or establish biological validity.
233
  - Redistributable: `true`
234
  - Complete weight publication required: `false`
235
 
236
- ## Provenance
237
 
238
- - FastPLMs weights: `Synthyra/ESMFold2-Fast@407875bfcaa42552bfcb25acd67ee1888b790170`
239
- - Runtime revision: `1b9ce023f1e06571cf3e6324be0610ffa53e0a4a`
240
- - Runtime source-tree SHA-256: `15e781c5f1cd2ba8486e22076df15ffab37d3c00a689bf25280d803f2d60ee74`
241
- - Runtime bundle SHA-256: `278bb01ff0e426ae5f707c7a93ee720a0e87dfade5afb658921528d784720232`
242
  - Generator/schema version and complete/runtime-only attestations: recorded in `provenance.json`
243
- - Official checkpoint: `biohub/ESMFold2-Fast@b28d8ace5e05e61e5bec1e6820cfd3e221819d12`
244
  - Artifact source: `fast`
245
  - State transform: `identity`
246
  - BF16 execution: `fp32_parameters_autocast`
@@ -249,7 +249,7 @@ or establish biological validity.
249
  - Release tiers: `check`, `compliance`, `structure`, `feature`, `artifact`, `benchmark`
250
  - Unresolved required file identities: `0`
251
 
252
- The local artifact records exact file identities, conversion provenance, source
253
  revisions, and legal texts in `provenance.json`. A nonzero unresolved count is a
254
  release blocker.
255
 
 
22
 
23
  ```bash
24
  python -m pip install \
25
+ "fastplms[structure] @ git+https://github.com/Synthyra/FastPLMs.git@ed38b898187ba16b64d801874decdddfe2938a58"
26
  ```
27
 
28
  Python 3.11-3.14, PyTorch 2.13, and Transformers 5.13 are required. Structure inference requires the `structure` extra and a CUDA device for the published execution contract. The current validated release target is the exact NVIDIA GH200 on Linux aarch64; Linux x86-64, CPU-only, Windows, and macOS structure runs are not current release evidence. The Hub quick start below requires network
 
187
  ## Hash-pinned CCD runtime asset
188
 
189
  Structure preparation requires `ccd.pkl` from
190
+ `biohub/ESMFold2`. The manifest pins
191
  its 417,306,584-byte size and SHA-256
192
  `9ff44b1927c6b9198e38ffe0928706827a09a350c15530beeeabebfa88038fc5`
193
  under MIT terms. This is a trusted-deserialization boundary: FastPLMs only
 
233
  - Redistributable: `true`
234
  - Complete weight publication required: `false`
235
 
236
+ ## Release record
237
 
238
+ - FastPLMs weights: `Synthyra/ESMFold2-Fast`
239
+ - Runtime revision: `ed38b898187ba16b64d801874decdddfe2938a58`
240
+ - Runtime source-tree SHA-256: `a004b0823a77112077314f3df75fbbf734aaf4e16563511facd7f74bc613f045`
241
+ - Runtime bundle SHA-256: `f0f08be30a8100f0a817d561efb367d45e9360b9a6cc5894d0f65b029dc7e4a6`
242
  - Generator/schema version and complete/runtime-only attestations: recorded in `provenance.json`
243
+ - Official checkpoint: `biohub/ESMFold2-Fast`
244
  - Artifact source: `fast`
245
  - State transform: `identity`
246
  - BF16 execution: `fp32_parameters_autocast`
 
249
  - Release tiers: `check`, `compliance`, `structure`, `feature`, `artifact`, `benchmark`
250
  - Unresolved required file identities: `0`
251
 
252
+ The local artifact records exact file identities, conversion details, source
253
  revisions, and legal texts in `provenance.json`. A nonzero unresolved count is a
254
  release blocker.
255
 
config.json CHANGED
@@ -29,11 +29,11 @@
29
  "fastplms_checkpoint_repo_id": "Synthyra/ESMFold2-Fast",
30
  "fastplms_checkpoint_revision": "407875bfcaa42552bfcb25acd67ee1888b790170",
31
  "fastplms_model_id": "esmfold2_fast",
32
- "fastplms_release_tool_revision": "1b9ce023f1e06571cf3e6324be0610ffa53e0a4a",
33
- "fastplms_release_tool_sha256": "1459b5d7d13d9b07bd97b3eee764f2ce73623e15e32d07ddf6825c2a9509afb9",
34
- "fastplms_runtime_bundle_sha256": "278bb01ff0e426ae5f707c7a93ee720a0e87dfade5afb658921528d784720232",
35
- "fastplms_runtime_revision": "1b9ce023f1e06571cf3e6324be0610ffa53e0a4a",
36
- "fastplms_source_tree_sha256": "15e781c5f1cd2ba8486e22076df15ffab37d3c00a689bf25280d803f2d60ee74",
37
  "fastplms_weights_revision": "407875bfcaa42552bfcb25acd67ee1888b790170",
38
  "folding_trunk": {
39
  "dropout": 0.25,
 
29
  "fastplms_checkpoint_repo_id": "Synthyra/ESMFold2-Fast",
30
  "fastplms_checkpoint_revision": "407875bfcaa42552bfcb25acd67ee1888b790170",
31
  "fastplms_model_id": "esmfold2_fast",
32
+ "fastplms_release_tool_revision": "ed38b898187ba16b64d801874decdddfe2938a58",
33
+ "fastplms_release_tool_sha256": "6b15c1ec4a44faba83aa128452b06c617de4c4f580ca1cc91f9fce9747ca784e",
34
+ "fastplms_runtime_bundle_sha256": "f0f08be30a8100f0a817d561efb367d45e9360b9a6cc5894d0f65b029dc7e4a6",
35
+ "fastplms_runtime_revision": "ed38b898187ba16b64d801874decdddfe2938a58",
36
+ "fastplms_source_tree_sha256": "a004b0823a77112077314f3df75fbbf734aaf4e16563511facd7f74bc613f045",
37
  "fastplms_weights_revision": "407875bfcaa42552bfcb25acd67ee1888b790170",
38
  "folding_trunk": {
39
  "dropout": 0.25,
fastplms/models.toml CHANGED
@@ -240,7 +240,7 @@ vram_tier = "sequence"
240
  checkpoint_license = "Profluent-E1-Agreement"
241
  hub_license = "other"
242
  hub_license_name = "Profluent-E1 Clickthrough License Agreement"
243
- hub_license_link = "https://github.com/Profluent-AI/E1/blob/bfd2620a602248499f3d2583d85a7ecddf0b6e02/LICENSE"
244
  weights_publication_allowed = true
245
  state_transform = "e1_to_fastplms_v1"
246
  conversion_provenance = "Input: the pinned Profluent-E1 checkpoint and tokenizer-free sequence contract. Transformation: apply e1_to_fastplms_v1 to the FastPLMs encoder and official task heads, storing floating tensors in BF16. Output: the pinned Synthyra Profluent-E1 checkpoint. Validation: release parity covers state identity after the declared cast, sequence and RAG preparation, aliases, and inference. Limitation: the FastPLMs scoring extension is not represented as an official E1 head."
@@ -267,7 +267,7 @@ checkpoint_license = "Apache-2.0"
267
  hub_license = "apache-2.0"
268
  weights_publication_allowed = true
269
  state_transform = "dplm_to_fastplms_v1"
270
- conversion_provenance = "Input: the pinned official DPLM1 checkpoint. Transformation: apply dplm_to_fastplms_v1, omitting the unused absolute-position table for rotary checkpoints and materializing the tied input/output embedding values as independent tensors. Output: the pinned Synthyra DPLM checkpoint. Validation: release parity compares exact state identity after the declared transform, tokenizer behavior, generation, and inference. License basis: the pinned ByteDance DPLM Apache-2.0 LICENSE and README explicitly scope the repository release to the pretrained DPLM1 and DPLM2 weights; immutable evidence is recorded in LICENSES/dplm/PROVENANCE.md. Limitation: redistribution remains subject to Apache-2.0 and the pinned provenance record; no broader rights are inferred."
271
  representative = "dplm_150m"
272
  documentation = "docs/models.md#dplm"
273
  test_tiers = ["check", "compliance", "feature", "artifact", "benchmark"]
@@ -291,7 +291,7 @@ checkpoint_license = "Apache-2.0"
291
  hub_license = "apache-2.0"
292
  weights_publication_allowed = true
293
  state_transform = "dplm2_to_fastplms_v1"
294
- conversion_provenance = "Input: the pinned official DPLM2 checkpoint. Transformation: apply dplm2_to_fastplms_v1, retaining the independent language-model head and trained encoder contact head while omitting the unused absolute-position table for rotary checkpoints. Output: the pinned Synthyra DPLM2 checkpoint. Validation: release parity compares exact keys and values after the declared omission, non-aliasing, tokenizer behavior, generation, and inference. License basis: the pinned ByteDance DPLM Apache-2.0 LICENSE and README explicitly scope the repository release to the pretrained DPLM1 and DPLM2 weights; immutable evidence is recorded in LICENSES/dplm/PROVENANCE.md. Limitation: no head exception is permitted by this record, and redistribution remains subject to Apache-2.0."
295
  representative = "dplm2_150m"
296
  documentation = "docs/models.md#dplm2"
297
  test_tiers = ["check", "compliance", "feature", "artifact", "benchmark"]
@@ -320,7 +320,7 @@ conversion_provenance = "Input: the pinned official ANKH T5 checkpoint. Transfor
320
  representative = "ankh_base"
321
  documentation = "docs/models.md#ankh"
322
  test_tiers = ["check", "compliance", "feature", "artifact", "benchmark"]
323
- requires_complete_weight_publication = true
324
  runtime_paths = ["__init__.py", "registry.py", "runtime.py", "models.toml", "models/__init__.py", "attention", "embeddings", "models/ankh", "models/ttt.py"]
325
  auto_map = { AutoConfig = "fastplms.models.ankh.modeling_ankh.FastAnkhConfig", AutoModel = "fastplms.models.ankh.modeling_ankh.FastAnkhModel", AutoModelForMaskedLM = "fastplms.models.ankh.modeling_ankh.FastAnkhForMaskedLMExtension", AutoModelForSeq2SeqLM = "fastplms.models.ankh.modeling_ankh.FastAnkhForConditionalGeneration", AutoModelForSequenceClassification = "fastplms.models.ankh.modeling_ankh.FastAnkhForSequenceClassification", AutoModelForTokenClassification = "fastplms.models.ankh.modeling_ankh.FastAnkhForTokenClassification" }
326
 
@@ -948,13 +948,14 @@ notes = "ANKH parity covers the official encoder and sequence-to-sequence heads.
948
  artifact_source = "official"
949
  canonical_state_sha256 = "cdd8d30d88e5bf41f44e1eef4470d8e46607aba5f7c7c805b06c035b89c8c16f"
950
  fast_repo = "Synthyra/ANKH_base"
951
- fast_revision = "7ec329aae8e3e174bf22a1eb9e0e9fcc12b53092"
952
  fast_files = [
953
- "config.json=git-sha1:7e1cbce6d08f9bb64eee4410899b1c6b4054f418",
954
- "model.safetensors=sha256:b0d3473cac1bda90e39cde54f2abe86da1fc84f872c833ca3415672776dccb95",
955
- "special_tokens_map.json=git-sha1:a2d8d626c31389a935e197fb94072e2414a6e7d1",
956
- "tokenizer.json=git-sha1:0734d752d12d0f46ac96467fbceb1c4bfbeee0be",
957
- "tokenizer_config.json=git-sha1:db0b80de72d3b16242b9eda74ed4663e39c65bcf",
 
958
  ]
959
  official_repo = "ElnaggarLab/ankh-base"
960
  official_revision = "d99cb6b966530dfc2ae96bc69d9255c2a07308b0"
@@ -976,13 +977,15 @@ notes = "ANKH parity covers the official encoder and sequence-to-sequence heads.
976
  artifact_source = "official"
977
  canonical_state_sha256 = "e498a2e9aea76ef784cbe3e596c6b3f5e9a40e209ad837f7e3207099e4d74483"
978
  fast_repo = "Synthyra/ANKH_large"
979
- fast_revision = "3be3df34140f49dc4e65bd1f247e3ce819e7fc59"
980
  fast_files = [
981
- "config.json=git-sha1:272509deedb527e5c2c95b0c269194a44148fdcc",
982
- "model.safetensors=sha256:e70b8f9755ac6bfe95d18359060ae9fe38fac63b12a89a886c83349d1adbaa53",
983
- "special_tokens_map.json=git-sha1:a2d8d626c31389a935e197fb94072e2414a6e7d1",
984
- "tokenizer.json=git-sha1:0734d752d12d0f46ac96467fbceb1c4bfbeee0be",
985
- "tokenizer_config.json=git-sha1:2bcaff2567826f5f51188b00600d2c6e7bcea56e",
 
 
986
  ]
987
  official_repo = "ElnaggarLab/ankh-large"
988
  official_revision = "74b371dbfa3ee0a05d32ae74df0c2e0b82d6b9a6"
@@ -1004,13 +1007,16 @@ notes = "ANKH parity covers the official encoder and sequence-to-sequence heads.
1004
  artifact_source = "official"
1005
  canonical_state_sha256 = "597c4fe2fa8711f11a25317905f1d62fa92905e55fdd5c0a79614cd9c9d2bca3"
1006
  fast_repo = "Synthyra/ANKH2_large"
1007
- fast_revision = "392de5ed52bbfd73b45f545e378aaebcff096d0e"
1008
  fast_files = [
1009
- "config.json=git-sha1:66b6adc7215743a98a3229958bbd1c9c42b6108b",
1010
- "model.safetensors=sha256:be8e6242388d93b51cd9719a0e32cfc17a2e804786570c795ba332197eccb915",
1011
- "special_tokens_map.json=git-sha1:a2d8d626c31389a935e197fb94072e2414a6e7d1",
1012
- "tokenizer.json=git-sha1:0734d752d12d0f46ac96467fbceb1c4bfbeee0be",
1013
- "tokenizer_config.json=git-sha1:db0b80de72d3b16242b9eda74ed4663e39c65bcf",
 
 
 
1014
  ]
1015
  official_repo = "ElnaggarLab/ankh2-ext2"
1016
  official_revision = "aa9b9fa72288c47d9f618ce80c011e24b54e17a8"
@@ -1033,13 +1039,17 @@ notes = "ANKH parity covers the official encoder and sequence-to-sequence heads.
1033
  artifact_source = "official"
1034
  canonical_state_sha256 = "60acb7ef86e85dc0c51fc1edf4c8e69a0480049723b6b2c95e6e9faa720c112a"
1035
  fast_repo = "Synthyra/ANKH3_large"
1036
- fast_revision = "53600f175f328f986f43e55ca8ceb14935d337a4"
1037
  fast_files = [
1038
- "config.json=git-sha1:432b09625d44a2eeab679fddb7495d42b560b7f9",
1039
- "model.safetensors=sha256:9f50f58cf5b3a537a0a41aa918695c3a26d7985dd0b2266642d6f86324c9e7a1",
1040
- "special_tokens_map.json=git-sha1:1fc3a4d6d4282e5201cd7c30d5c0a6a8bfa04f82",
1041
- "tokenizer.json=git-sha1:3d14291df2d6db3a183c5c4fe133afb330cc44cf",
1042
- "tokenizer_config.json=git-sha1:2005fec00a7ae9a49e248a1ecefbbd81c56674d6",
 
 
 
 
1043
  ]
1044
  official_repo = "ElnaggarLab/ankh3-large"
1045
  official_revision = "2be091622e8a393f0ef21735070084123c874b6e"
@@ -1063,15 +1073,20 @@ notes = "ANKH parity covers the official encoder and sequence-to-sequence heads.
1063
  artifact_source = "official"
1064
  canonical_state_sha256 = "dd2188e0d2ca65232135714eef6de394239734d843ddae4928c7398685d858e7"
1065
  fast_repo = "Synthyra/ANKH3_xl"
1066
- fast_revision = "3cbf2c22c4f7d67bf0bfcbdcd500f41723e91d29"
1067
  fast_files = [
1068
- "config.json=git-sha1:23f6d78ddcb3a031b88f876eaaf04c2fafaea46f",
1069
- "model-00001-of-00003.safetensors=sha256:39bd8f75cf98a67cf04055399f9fc401198f6fc2896b112aba9fd9ec9df52ab9",
1070
- "model-00002-of-00003.safetensors=sha256:9ff73233b39d2c200abb78e66b320c014ec61431bd6e1af36fb188a3cfa24c34",
1071
- "model-00003-of-00003.safetensors=sha256:c13125c02dbcd7f07bd412e9e085f2bca6624d2f1f45fedc95fb777f53161cbe",
1072
- "special_tokens_map.json=git-sha1:1fc3a4d6d4282e5201cd7c30d5c0a6a8bfa04f82",
1073
- "tokenizer.json=git-sha1:3d14291df2d6db3a183c5c4fe133afb330cc44cf",
1074
- "tokenizer_config.json=git-sha1:2005fec00a7ae9a49e248a1ecefbbd81c56674d6",
 
 
 
 
 
1075
  ]
1076
  official_repo = "ElnaggarLab/ankh3-xl"
1077
  official_revision = "e00113df5c95ef71df7ea3f5a73d56bd00e473a4"
 
240
  checkpoint_license = "Profluent-E1-Agreement"
241
  hub_license = "other"
242
  hub_license_name = "Profluent-E1 Clickthrough License Agreement"
243
+ hub_license_link = "https://github.com/Profluent-AI/E1/blob/main/LICENSE"
244
  weights_publication_allowed = true
245
  state_transform = "e1_to_fastplms_v1"
246
  conversion_provenance = "Input: the pinned Profluent-E1 checkpoint and tokenizer-free sequence contract. Transformation: apply e1_to_fastplms_v1 to the FastPLMs encoder and official task heads, storing floating tensors in BF16. Output: the pinned Synthyra Profluent-E1 checkpoint. Validation: release parity covers state identity after the declared cast, sequence and RAG preparation, aliases, and inference. Limitation: the FastPLMs scoring extension is not represented as an official E1 head."
 
267
  hub_license = "apache-2.0"
268
  weights_publication_allowed = true
269
  state_transform = "dplm_to_fastplms_v1"
270
+ conversion_provenance = "Input: the pinned official DPLM1 checkpoint. Transformation: apply dplm_to_fastplms_v1, omitting the unused absolute-position table for rotary checkpoints and materializing the tied input/output embedding values as independent tensors. Output: the pinned Synthyra DPLM checkpoint. Validation: release parity compares exact state identity after the declared transform, tokenizer behavior, generation, and inference. License basis: the pinned ByteDance DPLM Apache-2.0 LICENSE and README explicitly scope the repository release to the pretrained DPLM1 and DPLM2 weights; immutable evidence is recorded in LICENSES/dplm/PROVENANCE.md. Limitation: redistribution remains subject to Apache-2.0 and the pinned source record; no broader rights are inferred."
271
  representative = "dplm_150m"
272
  documentation = "docs/models.md#dplm"
273
  test_tiers = ["check", "compliance", "feature", "artifact", "benchmark"]
 
291
  hub_license = "apache-2.0"
292
  weights_publication_allowed = true
293
  state_transform = "dplm2_to_fastplms_v1"
294
+ conversion_provenance = "Input: the pinned official DPLM2 checkpoint. Transformation: apply dplm2_to_fastplms_v1, retaining the independent language-model head and trained encoder contact head while omitting the unused absolute-position table for rotary checkpoints. Output: the pinned Synthyra DPLM2 checkpoint. Validation: release parity compares exact keys and values after the declared omission, non-aliasing, tokenizer behavior, generation, and inference. License basis: the pinned ByteDance DPLM Apache-2.0 LICENSE and README explicitly scope the repository release to the pretrained DPLM1 and DPLM2 weights; immutable evidence is recorded in LICENSES/dplm/PROVENANCE.md. Limitation: no head exception is permitted by this source record, and redistribution remains subject to Apache-2.0."
295
  representative = "dplm2_150m"
296
  documentation = "docs/models.md#dplm2"
297
  test_tiers = ["check", "compliance", "feature", "artifact", "benchmark"]
 
320
  representative = "ankh_base"
321
  documentation = "docs/models.md#ankh"
322
  test_tiers = ["check", "compliance", "feature", "artifact", "benchmark"]
323
+ requires_complete_weight_publication = false
324
  runtime_paths = ["__init__.py", "registry.py", "runtime.py", "models.toml", "models/__init__.py", "attention", "embeddings", "models/ankh", "models/ttt.py"]
325
  auto_map = { AutoConfig = "fastplms.models.ankh.modeling_ankh.FastAnkhConfig", AutoModel = "fastplms.models.ankh.modeling_ankh.FastAnkhModel", AutoModelForMaskedLM = "fastplms.models.ankh.modeling_ankh.FastAnkhForMaskedLMExtension", AutoModelForSeq2SeqLM = "fastplms.models.ankh.modeling_ankh.FastAnkhForConditionalGeneration", AutoModelForSequenceClassification = "fastplms.models.ankh.modeling_ankh.FastAnkhForSequenceClassification", AutoModelForTokenClassification = "fastplms.models.ankh.modeling_ankh.FastAnkhForTokenClassification" }
326
 
 
948
  artifact_source = "official"
949
  canonical_state_sha256 = "cdd8d30d88e5bf41f44e1eef4470d8e46607aba5f7c7c805b06c035b89c8c16f"
950
  fast_repo = "Synthyra/ANKH_base"
951
+ fast_revision = "a3afa1db21c876dff57b3540fa7241e138fb1ed6"
952
  fast_files = [
953
+ "config.json=git-sha1:d1b81bb97129bc75dea04daef1ea2af373018e6b",
954
+ "model-00001-of-00001.safetensors=sha256:c943d25cacdafd2c8e3518a74450b5f90f715becf30ceb24c327f1c5a0bc8b5d",
955
+ "model.safetensors.index.json=git-sha1:ca251ab9277c06081b33e027f68f5bdc0808b443",
956
+ "special_tokens_map.json=git-sha1:55b145827029ae9672e50d4bb368540daacce791",
957
+ "tokenizer.json=git-sha1:212c5ef08819fa2463c6289ba4ef7db30e715c0a",
958
+ "tokenizer_config.json=git-sha1:a8a872ae3441e7cc85ce19210dff1e4c5d2d7bd0",
959
  ]
960
  official_repo = "ElnaggarLab/ankh-base"
961
  official_revision = "d99cb6b966530dfc2ae96bc69d9255c2a07308b0"
 
977
  artifact_source = "official"
978
  canonical_state_sha256 = "e498a2e9aea76ef784cbe3e596c6b3f5e9a40e209ad837f7e3207099e4d74483"
979
  fast_repo = "Synthyra/ANKH_large"
980
+ fast_revision = "92d2403bbe3c32acaa944fbb8dc2beb5f571f008"
981
  fast_files = [
982
+ "config.json=git-sha1:46eef0fff286107820f8ffc523127fa981435aeb",
983
+ "model-00001-of-00002.safetensors=sha256:79301f0b6a4fcbfd3b8bd10ca892846d79b1aad6ad06976da7380249e36f5158",
984
+ "model-00002-of-00002.safetensors=sha256:20062a5049fcde509030024527665a75062a95d64966558dfcaa9245b441cbec",
985
+ "model.safetensors.index.json=git-sha1:6b707ca3ce7255d241a52feeca68c0cbbe2a383f",
986
+ "special_tokens_map.json=git-sha1:55b145827029ae9672e50d4bb368540daacce791",
987
+ "tokenizer.json=git-sha1:212c5ef08819fa2463c6289ba4ef7db30e715c0a",
988
+ "tokenizer_config.json=git-sha1:d7fe02ba6f2b18d9ccfa19ac129c9fdc9ec24d09",
989
  ]
990
  official_repo = "ElnaggarLab/ankh-large"
991
  official_revision = "74b371dbfa3ee0a05d32ae74df0c2e0b82d6b9a6"
 
1007
  artifact_source = "official"
1008
  canonical_state_sha256 = "597c4fe2fa8711f11a25317905f1d62fa92905e55fdd5c0a79614cd9c9d2bca3"
1009
  fast_repo = "Synthyra/ANKH2_large"
1010
+ fast_revision = "729167c1980316ae61691338838447491926033f"
1011
  fast_files = [
1012
+ "config.json=git-sha1:dd5d59e6b74bc8afa9fd4a5bda13526c235dabb8",
1013
+ "generation_config.json=git-sha1:91f792e452403d46e170e206f9e50be5ddef9b9a",
1014
+ "model-00001-of-00002.safetensors=sha256:7c0c297f60bcf81c732cdfeae6e99e140272807eb52afd70356fc6fdfa94e5a8",
1015
+ "model-00002-of-00002.safetensors=sha256:f3d425d3e8741ccbdd925446559a9bf317c2c91e328f2eee44924423b56e3a3d",
1016
+ "model.safetensors.index.json=git-sha1:6b707ca3ce7255d241a52feeca68c0cbbe2a383f",
1017
+ "special_tokens_map.json=git-sha1:55b145827029ae9672e50d4bb368540daacce791",
1018
+ "tokenizer.json=git-sha1:212c5ef08819fa2463c6289ba4ef7db30e715c0a",
1019
+ "tokenizer_config.json=git-sha1:854e5db75dae8b1e9dd39c5bae80dae5508b3e25",
1020
  ]
1021
  official_repo = "ElnaggarLab/ankh2-ext2"
1022
  official_revision = "aa9b9fa72288c47d9f618ce80c011e24b54e17a8"
 
1039
  artifact_source = "official"
1040
  canonical_state_sha256 = "60acb7ef86e85dc0c51fc1edf4c8e69a0480049723b6b2c95e6e9faa720c112a"
1041
  fast_repo = "Synthyra/ANKH3_large"
1042
+ fast_revision = "c6d16ca2a1b3b27a27bcf3875e816a059029d264"
1043
  fast_files = [
1044
+ "config.json=git-sha1:813ffc6c319549a2c1f3503e1309c36110202d65",
1045
+ "generation_config.json=git-sha1:5767cc0cacebfd06884eb27ae1c796d3ca829fd2",
1046
+ "model-00001-of-00002.safetensors=sha256:7f1f5c5dcff4b6bc6b8464fe9a7eebdd99b0789ee8da895f42a41bdb04191654",
1047
+ "model-00002-of-00002.safetensors=sha256:c1a67cef9b76202362ff00c9d2b2dc4b5fc7acd1f22d30c8b3f2e3d2597d0f22",
1048
+ "model.safetensors.index.json=git-sha1:a20cfc1f8517ef47d12d08604dc93c064f1e6736",
1049
+ "special_tokens_map.json=git-sha1:d596919b7fa2a197edd441ec3ec4685ecacd2de4",
1050
+ "spiece.model=sha256:f2b5e1bbd110b71ca9b2878e1fcd3265610076ecc97bd696e8a745c9bacc54e0",
1051
+ "tokenizer.json=git-sha1:90f0c94b43c81496b3ca81e3ec1c092ef2dd7fca",
1052
+ "tokenizer_config.json=git-sha1:0e699eebfa778698473b4faf1e66ef363b93fb21",
1053
  ]
1054
  official_repo = "ElnaggarLab/ankh3-large"
1055
  official_revision = "2be091622e8a393f0ef21735070084123c874b6e"
 
1073
  artifact_source = "official"
1074
  canonical_state_sha256 = "dd2188e0d2ca65232135714eef6de394239734d843ddae4928c7398685d858e7"
1075
  fast_repo = "Synthyra/ANKH3_xl"
1076
+ fast_revision = "d2856892e7535af2f55c2c4de043b1b272a29ed8"
1077
  fast_files = [
1078
+ "config.json=git-sha1:791460a5c0d6c03bebbac1d7eec7e35805eaf7b7",
1079
+ "generation_config.json=git-sha1:91f792e452403d46e170e206f9e50be5ddef9b9a",
1080
+ "model-00001-of-00005.safetensors=sha256:f6b841f6b800e436b08e362d04f8442fd044839b1e32ba6ac01ecb30a9d2bae5",
1081
+ "model-00002-of-00005.safetensors=sha256:ea556d511d4747ada49b9d0c24ef503774410093e53c0d003ffb9407efc2be31",
1082
+ "model-00003-of-00005.safetensors=sha256:125884f5dcb5b44435e3b76330582f31f74547b67c9b6cadf9a4d7cf38748eb7",
1083
+ "model-00004-of-00005.safetensors=sha256:e776ef6c5d6a50d4b3fcf0bbb2431de7ce813eddd2903290e54809c801ddb241",
1084
+ "model-00005-of-00005.safetensors=sha256:58ee3b065cfcccd179fdbecef9827dfb91feb33e0d8385b692e6309d56ec530e",
1085
+ "model.safetensors.index.json=git-sha1:74d149f64234c3f43eb85971f40b4a1c6d05a407",
1086
+ "special_tokens_map.json=git-sha1:d596919b7fa2a197edd441ec3ec4685ecacd2de4",
1087
+ "spiece.model=sha256:f2b5e1bbd110b71ca9b2878e1fcd3265610076ecc97bd696e8a745c9bacc54e0",
1088
+ "tokenizer.json=git-sha1:90f0c94b43c81496b3ca81e3ec1c092ef2dd7fca",
1089
+ "tokenizer_config.json=git-sha1:0e699eebfa778698473b4faf1e66ef363b93fb21",
1090
  ]
1091
  official_repo = "ElnaggarLab/ankh3-xl"
1092
  official_revision = "e00113df5c95ef71df7ea3f5a73d56bd00e473a4"
fastplms_bundle.py CHANGED
The diff for this file is too large to render. See raw diff
 
modeling_fastplms.py CHANGED
@@ -13,7 +13,7 @@ from zipfile import ZIP_DEFLATED, ZipFile
13
 
14
  from .fastplms_bundle import RUNTIME_DATA, RUNTIME_HASH
15
 
16
- if RUNTIME_HASH != "278bb01ff0e426ae5f707c7a93ee720a0e87dfade5afb658921528d784720232":
17
  raise RuntimeError("FastPLMs runtime identity differs from the bridge.")
18
 
19
  _RUNTIME_TEMPORARIES = []
 
13
 
14
  from .fastplms_bundle import RUNTIME_DATA, RUNTIME_HASH
15
 
16
+ if RUNTIME_HASH != "f0f08be30a8100f0a817d561efb367d45e9360b9a6cc5894d0f65b029dc7e4a6":
17
  raise RuntimeError("FastPLMs runtime identity differs from the bridge.")
18
 
19
  _RUNTIME_TEMPORARIES = []
runtime-attestation.json CHANGED
@@ -6,9 +6,9 @@
6
  "LICENSES/biohub-transformers/LICENSE": "sha256:77fd4710def9ec3c0f6225800e0235f15a425abd4a8b03559127fcd782612049",
7
  "LICENSES/protein-ttt/LICENSE": "sha256:bb01e7d5554f9e2e117172e56551452f68a7818df7bc8e71cd7a776a1d4ba3df",
8
  "LICENSES/protein-ttt/PROVENANCE.md": "sha256:dc641c37353c2efd50ccbdb316ca4aae495ec02c1563e0e15bac92f75fc482e5",
9
- "README.md": "sha256:9e076cf2688e812771b971d48ce2fc5b97223a77305fffdfbd1e4377418c6423",
10
  "THIRD_PARTY_NOTICES.md": "sha256:25704b3c76404696cae52e7fca13088d329f70f412687340351259e86cd62baa",
11
- "config.json": "sha256:29ab7342739ddae241a9397a93a9268f15303a8da19714b9f149fef41117c998",
12
  "fastplms/__init__.py": "sha256:4fb3196022ca8ec699d59d09bdbc5f0184195552b773698ab9b061fe3cd7df12",
13
  "fastplms/attention/__init__.py": "sha256:f60b9fecfb4bcb37a4e7c26dc2f752b9035f9cbad627b4a84213f3a92ec88f7d",
14
  "fastplms/attention/_core.py": "sha256:8f7ec5b65bd8b6c6fa4951d50d1c0e499abf03ae00914794b51fc410201e3e33",
@@ -19,7 +19,7 @@
19
  "fastplms/embeddings/runner.py": "sha256:23ee4727a918d6d331f7a0f89b823d149f1a791f0c5586e3496d7b6eb2ce97e0",
20
  "fastplms/embeddings/storage.py": "sha256:3fbe2bab75092e5a4cadf4d27e4752181d597469a65a55db085ceef808ed418e",
21
  "fastplms/embeddings/types.py": "sha256:119718a20989d1ae5a60fabc0f5e98bdc172c5163b04db3d4554ac3956b30e52",
22
- "fastplms/models.toml": "sha256:05a8399f084a5babb5f0916cee7e564c4030767f3ff0230c4f46e539209847d1",
23
  "fastplms/models/__init__.py": "sha256:5e48c2cb3877aa6f42f3b5411d53b16bba2e32827bbde634f47f174c5cb36f86",
24
  "fastplms/models/esm_plusplus/__init__.py": "sha256:e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855",
25
  "fastplms/models/esm_plusplus/modeling_esm_plusplus.py": "sha256:7fc8047100a2d0ca230bc687126c4ccd3f46c0e51cefd39413e72e3842e14012",
@@ -64,18 +64,18 @@
64
  "fastplms/models/ttt.py": "sha256:a0df4e98b02120d423e3c7ca9b866a8d0e3748b9076042a0102a838a11aed046",
65
  "fastplms/registry.py": "sha256:afca271911b651a882345b74a58366494a1d784e4a48c8683a87f5508f4ba16e",
66
  "fastplms/runtime.py": "sha256:110018646d6f248cedab140a030c3065e1b062b61f6aff659c231e538614bc01",
67
- "fastplms_bundle.py": "sha256:82ddf2db65cdeb055905461bd86e65abd6352ba5a16566c73bcb42b407c938fb",
68
- "modeling_fastplms.py": "sha256:6a4826b8eb6fe7e2d4356e46099b68e16e5c7d1e85dedb87999cbee745aecf4f"
69
  },
70
  "model_id": "esmfold2_fast",
71
  "redistributable": true,
72
- "release_tool_revision": "1b9ce023f1e06571cf3e6324be0610ffa53e0a4a",
73
- "release_tool_sha256": "1459b5d7d13d9b07bd97b3eee764f2ce73623e15e32d07ddf6825c2a9509afb9",
74
- "runtime_bundle_sha256": "278bb01ff0e426ae5f707c7a93ee720a0e87dfade5afb658921528d784720232",
75
- "runtime_revision": "1b9ce023f1e06571cf3e6324be0610ffa53e0a4a",
76
  "schema_version": 2,
77
  "scope": "runtime-only",
78
- "source_tree_sha256": "15e781c5f1cd2ba8486e22076df15ffab37d3c00a689bf25280d803f2d60ee74",
79
  "weights": {
80
  "repo_id": "Synthyra/ESMFold2-Fast",
81
  "revision": "407875bfcaa42552bfcb25acd67ee1888b790170"
 
6
  "LICENSES/biohub-transformers/LICENSE": "sha256:77fd4710def9ec3c0f6225800e0235f15a425abd4a8b03559127fcd782612049",
7
  "LICENSES/protein-ttt/LICENSE": "sha256:bb01e7d5554f9e2e117172e56551452f68a7818df7bc8e71cd7a776a1d4ba3df",
8
  "LICENSES/protein-ttt/PROVENANCE.md": "sha256:dc641c37353c2efd50ccbdb316ca4aae495ec02c1563e0e15bac92f75fc482e5",
9
+ "README.md": "sha256:1cb91e163ef9511c682c64bbb83c15f558c3393ae6790e7025dda28e00d05abc",
10
  "THIRD_PARTY_NOTICES.md": "sha256:25704b3c76404696cae52e7fca13088d329f70f412687340351259e86cd62baa",
11
+ "config.json": "sha256:e40c9dd51b9d7f423f23a01d283d9fb35e2c684a6aee8995d78c7ba8e5b0c9df",
12
  "fastplms/__init__.py": "sha256:4fb3196022ca8ec699d59d09bdbc5f0184195552b773698ab9b061fe3cd7df12",
13
  "fastplms/attention/__init__.py": "sha256:f60b9fecfb4bcb37a4e7c26dc2f752b9035f9cbad627b4a84213f3a92ec88f7d",
14
  "fastplms/attention/_core.py": "sha256:8f7ec5b65bd8b6c6fa4951d50d1c0e499abf03ae00914794b51fc410201e3e33",
 
19
  "fastplms/embeddings/runner.py": "sha256:23ee4727a918d6d331f7a0f89b823d149f1a791f0c5586e3496d7b6eb2ce97e0",
20
  "fastplms/embeddings/storage.py": "sha256:3fbe2bab75092e5a4cadf4d27e4752181d597469a65a55db085ceef808ed418e",
21
  "fastplms/embeddings/types.py": "sha256:119718a20989d1ae5a60fabc0f5e98bdc172c5163b04db3d4554ac3956b30e52",
22
+ "fastplms/models.toml": "sha256:1b0d92911222f31b435bfee80251c9abe20b85392d65f8af8d285d1ccfbbc3c5",
23
  "fastplms/models/__init__.py": "sha256:5e48c2cb3877aa6f42f3b5411d53b16bba2e32827bbde634f47f174c5cb36f86",
24
  "fastplms/models/esm_plusplus/__init__.py": "sha256:e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855",
25
  "fastplms/models/esm_plusplus/modeling_esm_plusplus.py": "sha256:7fc8047100a2d0ca230bc687126c4ccd3f46c0e51cefd39413e72e3842e14012",
 
64
  "fastplms/models/ttt.py": "sha256:a0df4e98b02120d423e3c7ca9b866a8d0e3748b9076042a0102a838a11aed046",
65
  "fastplms/registry.py": "sha256:afca271911b651a882345b74a58366494a1d784e4a48c8683a87f5508f4ba16e",
66
  "fastplms/runtime.py": "sha256:110018646d6f248cedab140a030c3065e1b062b61f6aff659c231e538614bc01",
67
+ "fastplms_bundle.py": "sha256:d14d0f34a4ba4a726343a77763a337030858b89f5c6d074cf08441fd2c3f9757",
68
+ "modeling_fastplms.py": "sha256:0fb82342fb2487c0206385e0d9554e8862d55aebfe144c03cce214875bc116d3"
69
  },
70
  "model_id": "esmfold2_fast",
71
  "redistributable": true,
72
+ "release_tool_revision": "ed38b898187ba16b64d801874decdddfe2938a58",
73
+ "release_tool_sha256": "6b15c1ec4a44faba83aa128452b06c617de4c4f580ca1cc91f9fce9747ca784e",
74
+ "runtime_bundle_sha256": "f0f08be30a8100f0a817d561efb367d45e9360b9a6cc5894d0f65b029dc7e4a6",
75
+ "runtime_revision": "ed38b898187ba16b64d801874decdddfe2938a58",
76
  "schema_version": 2,
77
  "scope": "runtime-only",
78
+ "source_tree_sha256": "a004b0823a77112077314f3df75fbbf734aaf4e16563511facd7f74bc613f045",
79
  "weights": {
80
  "repo_id": "Synthyra/ESMFold2-Fast",
81
  "revision": "407875bfcaa42552bfcb25acd67ee1888b790170"