Update FastPLMs runtime files
Browse filesAdd-only FastPLMs files-only publication. Checkpoint weights and complete-artifact attestations are unchanged.
- README.md +4 -4
- config.json +5 -5
- fastplms/registry.py +8 -1
- fastplms_bundle.py +189 -187
- modeling_fastplms.py +1 -1
- runtime-attestation.json +10 -10
README.md
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@@ -22,7 +22,7 @@ Install FastPLMs from the exact source revision paired with this model card:
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```bash
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python -m pip install \
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"fastplms @ git+https://github.com/Synthyra/FastPLMs.git@
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```
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Python 3.11-3.14, PyTorch 2.13, and Transformers 5.13 are required. Eager, SDPA, and Flex use the core install. FlashAttention requires the `flash` extra, compatible CUDA hardware, and BF16 execution. The Hub quick start below requires network
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@@ -210,9 +210,9 @@ not constitute parity or quality claims.
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## Provenance
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- FastPLMs weights: `Synthyra/ESMplusplus_small@46c5f7d562e47d4c14165b424c71ab7db008e6fb`
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- Runtime revision: `
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- Runtime source-tree SHA-256: `
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- Runtime bundle SHA-256: `
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- Generator/schema version and complete/runtime-only attestations: recorded in `provenance.json`
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- Official checkpoint: `biohub/ESMC-300M@a59b831785f907e96e6a246b1d142bfb76df31ee`
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- Artifact source: `fast`
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```bash
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python -m pip install \
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"fastplms @ git+https://github.com/Synthyra/FastPLMs.git@1b9ce023f1e06571cf3e6324be0610ffa53e0a4a"
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```
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Python 3.11-3.14, PyTorch 2.13, and Transformers 5.13 are required. Eager, SDPA, and Flex use the core install. FlashAttention requires the `flash` extra, compatible CUDA hardware, and BF16 execution. The Hub quick start below requires network
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## Provenance
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- FastPLMs weights: `Synthyra/ESMplusplus_small@46c5f7d562e47d4c14165b424c71ab7db008e6fb`
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- Runtime revision: `1b9ce023f1e06571cf3e6324be0610ffa53e0a4a`
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- Runtime source-tree SHA-256: `2c23b8861c885e2522cf035124160e01c696f699a83ef7e0c8f3f06c95e3c34a`
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- Runtime bundle SHA-256: `62d4b093eb88e1d68cfd6d88fe09c982156c04b7c508417709c8e41536ae19ff`
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- Generator/schema version and complete/runtime-only attestations: recorded in `provenance.json`
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- Official checkpoint: `biohub/ESMC-300M@a59b831785f907e96e6a246b1d142bfb76df31ee`
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- Artifact source: `fast`
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config.json
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"fastplms_checkpoint_repo_id": "Synthyra/ESMplusplus_small",
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"fastplms_checkpoint_revision": "46c5f7d562e47d4c14165b424c71ab7db008e6fb",
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"fastplms_model_id": "esmc_small",
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"fastplms_release_tool_revision": "
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"fastplms_release_tool_sha256": "
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"fastplms_runtime_bundle_sha256": "
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"fastplms_runtime_revision": "
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"fastplms_source_tree_sha256": "
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"fastplms_weights_revision": "46c5f7d562e47d4c14165b424c71ab7db008e6fb",
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"hidden_size": 960,
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"initializer_range": 0.02,
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"fastplms_checkpoint_repo_id": "Synthyra/ESMplusplus_small",
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"fastplms_checkpoint_revision": "46c5f7d562e47d4c14165b424c71ab7db008e6fb",
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"fastplms_model_id": "esmc_small",
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"fastplms_release_tool_revision": "1b9ce023f1e06571cf3e6324be0610ffa53e0a4a",
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"fastplms_release_tool_sha256": "1459b5d7d13d9b07bd97b3eee764f2ce73623e15e32d07ddf6825c2a9509afb9",
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"fastplms_runtime_bundle_sha256": "62d4b093eb88e1d68cfd6d88fe09c982156c04b7c508417709c8e41536ae19ff",
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"fastplms_runtime_revision": "1b9ce023f1e06571cf3e6324be0610ffa53e0a4a",
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"fastplms_source_tree_sha256": "2c23b8861c885e2522cf035124160e01c696f699a83ef7e0c8f3f06c95e3c34a",
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"fastplms_weights_revision": "46c5f7d562e47d4c14165b424c71ab7db008e6fb",
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"hidden_size": 960,
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"initializer_range": 0.02,
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fastplms/registry.py
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_HEX_RE = re.compile(r"^[0-9a-f]+$")
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_IDENTIFIER_RE = re.compile(r"^[a-z0-9][a-z0-9_-]*$")
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_WINDOWS_INVALID_PATH_CHARACTERS = frozenset('<>:"|?*')
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_WINDOWS_RESERVED_PATH_NAMES = frozenset(
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{"AUX", "CON", "NUL", "PRN"}
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metadata = {"license": self.hub_license}
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if self.hub_license_name is not None:
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-
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if self.hub_license_link is not None:
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metadata["license_link"] = self.hub_license_link
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return MappingProxyType(metadata)
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_HEX_RE = re.compile(r"^[0-9a-f]+$")
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_IDENTIFIER_RE = re.compile(r"^[a-z0-9][a-z0-9_-]*$")
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_HUB_LICENSE_NAME_RE = re.compile(r"[^a-z0-9.]+")
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_WINDOWS_INVALID_PATH_CHARACTERS = frozenset('<>:"|?*')
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_WINDOWS_RESERVED_PATH_NAMES = frozenset(
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{"AUX", "CON", "NUL", "PRN"}
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metadata = {"license": self.hub_license}
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if self.hub_license_name is not None:
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# Hugging Face validates custom license names as lowercase slugs,
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# while the manifest retains the reader-facing display name used
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# in generated prose.
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metadata["license_name"] = _HUB_LICENSE_NAME_RE.sub(
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"-",
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self.hub_license_name.lower(),
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).strip("-.")
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if self.hub_license_link is not None:
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metadata["license_link"] = self.hub_license_link
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return MappingProxyType(metadata)
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fastplms_bundle.py
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"""Generated deterministic archive of unchanged FastPLMs runtime sources."""
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RUNTIME_HASH = "
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RUNTIME_DATA = (
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'P)h>@6aWAK2mk;8AplDmgd>{*002M-000yK003rTb98WQZF4VQUukY>bYEXCaCwcDT~FIE6o&8fE6#kCOkKrpD{WG>fiw*S0w!&%'
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'ka3ff)~XXnw!<ih|Gr}<E=?(v+%(O3-uHYsJ!OoY2<t9R&nz_UT*(|7k*~x8LDmjUDRLYq$@LPU(nYHfT8kExcvu78H`+K0R)ehk'
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'Q(u1_)zoV7>PqhX$$5NaDoprEQGREkOLH1f=@_@&Z*0feEzOvP{KL_4f%=Crnk<K3@(xX7X|P`$kR(11j5Z1#6-GNK^?a;Q*|ja0'
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'UV+eIh%CxVRLoPo$3~Hi7<`uAvH|UCb@It0+eS>sF|#2pC4j>nr0C=SrZmROzm8cEs6`VnzNGlZzc5e4u*Nu8tjvy>4JxA;K%R@d'
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'q|YOs$IVddOY@Fd8Bdvs+M$uvY!@%l$0A)>kWWzKquFPwxdM@%9H=zG`et@66^~aO!WL^R5n=uGT574m;uGrcP#f;9TJbNt!o>dr'
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)
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"""Generated deterministic archive of unchanged FastPLMs runtime sources."""
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RUNTIME_HASH = "62d4b093eb88e1d68cfd6d88fe09c982156c04b7c508417709c8e41536ae19ff"
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RUNTIME_DATA = (
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'P)h>@6aWAK2mk;8AplDmgd>{*002M-000yK003rTb98WQZF4VQUukY>bYEXCaCwcDT~FIE6o&8fE6#kCOkKrpD{WG>fiw*S0w!&%'
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'ka3ff)~XXnw!<ih|Gr}<E=?(v+%(O3-uHYsJ!OoY2<t9R&nz_UT*(|7k*~x8LDmjUDRLYq$@LPU(nYHfT8kExcvu78H`+K0R)ehk'
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'Q(u1_)zoV7>PqhX$$5NaDoprEQGREkOLH1f=@_@&Z*0feEzOvP{KL_4f%=Crnk<K3@(xX7X|P`$kR(11j5Z1#6-GNK^?a;Q*|ja0'
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+
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'_j(Y${<3eBKRO++Qy!2#8=an<AC6DX{tDyj9nZa;zsVt0Khq%$>#Oi5HsWWagVEXOcz={a-^P1~$NmXZi+4v(-5-1Zy{jMkHnhFB'
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| 1138 |
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| 1143 |
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| 1144 |
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| 1145 |
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| 1146 |
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| 1148 |
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| 1149 |
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| 1150 |
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| 1151 |
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| 1152 |
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| 1154 |
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| 1155 |
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| 1156 |
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| 1157 |
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| 1159 |
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| 1161 |
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| 1162 |
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| 1167 |
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| 1171 |
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| 1173 |
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| 1179 |
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| 1180 |
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| 1181 |
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| 1182 |
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| 1183 |
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| 1187 |
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| 1188 |
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| 1190 |
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| 1191 |
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| 1192 |
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| 1194 |
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| 1195 |
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| 1196 |
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| 1197 |
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| 1198 |
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| 1199 |
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| 1200 |
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| 1201 |
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| 1202 |
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| 1203 |
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| 1204 |
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| 1206 |
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| 1207 |
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| 1208 |
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| 1209 |
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| 1210 |
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| 1211 |
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| 1212 |
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| 1213 |
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| 1214 |
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| 1215 |
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| 1216 |
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| 1217 |
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| 1218 |
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| 1219 |
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| 1220 |
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|
| 1221 |
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| 1306 |
+
'2mk;8ApjFmATV+U000OW000#L0000000000005+cV!QwVW?^%5aBOXJFKcCTZe?t9E^KdOYfwu80u%!j000080000X09MH_Z5&Pj'
|
| 1307 |
+
'07WMO02BZK00000000000HlEj!vFwgVRLkFY;AKdZEs{{Y;!JjZ*6Q)O928D0~7!N00;m803iTxV;JD@0000_0RR9S0000000000'
|
| 1308 |
+
'0001_fmIO!0A^uxbZ~5Kb1!XgWMyn~FJE72ZfSI1UoLQYP)h*<6ay3h000O8001EX000000ssI200000C;$Ke0000000000q=9}C'
|
| 1309 |
+
'0RU!Ub98WQZF4VeZ)9a`b1!9cZC`L~b#riRb#pIYUukY>bYEXCaCuNm0Rj{Q6aWAK2mk;8Apk!(`{ETV000r>001=r0000000000'
|
| 1310 |
+
'005+c#u5PlW?^%5aBOXJFKusRWo&aVWpiy`aBOvRaBOvRFKusRWo&6~XJ2J=ZC`L~b#riRb#pFoc~DCM0u%!j000080000X03DAy'
|
| 1311 |
+
'6Yd`X02_}002TlM00000000000HlE~J^=t`VRLkFY;AKdZEs{{Y;!MkbaXCoc~DCM0u%!j000080000X0HIV6Gn6p^05$3W02BZK'
|
| 1312 |
+
'00000000000HlFXUI74RVRLkFY;AKda%E>}b98cfE^v8JO928D0~7!N00;m803iSp?3Zv*0{{T*2><{S00000000000001_ffkSf'
|
| 1313 |
+
'0A^uxbZ~5Kb1!mrZggpFWiD`eP)h{{000005&#kaJp}*&my-bi000'
|
| 1314 |
)
|
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 != "
|
| 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 != "62d4b093eb88e1d68cfd6d88fe09c982156c04b7c508417709c8e41536ae19ff":
|
| 17 |
raise RuntimeError("FastPLMs runtime identity differs from the bridge.")
|
| 18 |
|
| 19 |
_RUNTIME_TEMPORARIES = []
|
runtime-attestation.json
CHANGED
|
@@ -4,9 +4,9 @@
|
|
| 4 |
"LICENSES/biohub-esm/LICENSE.md": "sha256:b63df9ca1dd96b3b21eec226b51b236d0bd152ac20eafc43aad46bf832b48d8a",
|
| 5 |
"LICENSES/biohub-esm/THIRD_PARTY_NOTICE.md": "sha256:5bff8515ba4e0f53abdc43714c180b79c5b606160497d98de741a369cb9b6a23",
|
| 6 |
"LICENSES/biohub-transformers/LICENSE": "sha256:77fd4710def9ec3c0f6225800e0235f15a425abd4a8b03559127fcd782612049",
|
| 7 |
-
"README.md": "sha256:
|
| 8 |
"THIRD_PARTY_NOTICES.md": "sha256:25704b3c76404696cae52e7fca13088d329f70f412687340351259e86cd62baa",
|
| 9 |
-
"config.json": "sha256:
|
| 10 |
"fastplms/__init__.py": "sha256:4fb3196022ca8ec699d59d09bdbc5f0184195552b773698ab9b061fe3cd7df12",
|
| 11 |
"fastplms/attention/__init__.py": "sha256:f60b9fecfb4bcb37a4e7c26dc2f752b9035f9cbad627b4a84213f3a92ec88f7d",
|
| 12 |
"fastplms/attention/_core.py": "sha256:8f7ec5b65bd8b6c6fa4951d50d1c0e499abf03ae00914794b51fc410201e3e33",
|
|
@@ -23,23 +23,23 @@
|
|
| 23 |
"fastplms/models/esm_plusplus/__init__.py": "sha256:e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855",
|
| 24 |
"fastplms/models/esm_plusplus/modeling_esm_plusplus.py": "sha256:7fc8047100a2d0ca230bc687126c4ccd3f46c0e51cefd39413e72e3842e14012",
|
| 25 |
"fastplms/models/ttt.py": "sha256:a0df4e98b02120d423e3c7ca9b866a8d0e3748b9076042a0102a838a11aed046",
|
| 26 |
-
"fastplms/registry.py": "sha256:
|
| 27 |
"fastplms/runtime.py": "sha256:110018646d6f248cedab140a030c3065e1b062b61f6aff659c231e538614bc01",
|
| 28 |
-
"fastplms_bundle.py": "sha256:
|
| 29 |
-
"modeling_fastplms.py": "sha256:
|
| 30 |
"special_tokens_map.json": "sha256:0b7245ec86c8c3aeaf61523ba70dfa79be137e6283f127bd651adc30b4f15c74",
|
| 31 |
"tokenizer.json": "sha256:8d3447b278176e65fb3ef0224472927bf5fee3be46ea2bd77fad0111423cee1f",
|
| 32 |
"tokenizer_config.json": "sha256:e8d8e40c9f92b334f0272e80bb65ed4043cb9836523cbae899e9859e8cbb8833"
|
| 33 |
},
|
| 34 |
"model_id": "esmc_small",
|
| 35 |
"redistributable": true,
|
| 36 |
-
"release_tool_revision": "
|
| 37 |
-
"release_tool_sha256": "
|
| 38 |
-
"runtime_bundle_sha256": "
|
| 39 |
-
"runtime_revision": "
|
| 40 |
"schema_version": 2,
|
| 41 |
"scope": "runtime-only",
|
| 42 |
-
"source_tree_sha256": "
|
| 43 |
"weights": {
|
| 44 |
"repo_id": "Synthyra/ESMplusplus_small",
|
| 45 |
"revision": "46c5f7d562e47d4c14165b424c71ab7db008e6fb"
|
|
|
|
| 4 |
"LICENSES/biohub-esm/LICENSE.md": "sha256:b63df9ca1dd96b3b21eec226b51b236d0bd152ac20eafc43aad46bf832b48d8a",
|
| 5 |
"LICENSES/biohub-esm/THIRD_PARTY_NOTICE.md": "sha256:5bff8515ba4e0f53abdc43714c180b79c5b606160497d98de741a369cb9b6a23",
|
| 6 |
"LICENSES/biohub-transformers/LICENSE": "sha256:77fd4710def9ec3c0f6225800e0235f15a425abd4a8b03559127fcd782612049",
|
| 7 |
+
"README.md": "sha256:f15b219cb738c565285817d3ce1cf176471560dea271b7ab2562a759be7eee62",
|
| 8 |
"THIRD_PARTY_NOTICES.md": "sha256:25704b3c76404696cae52e7fca13088d329f70f412687340351259e86cd62baa",
|
| 9 |
+
"config.json": "sha256:2b1b49c18e33e0b72d629c77b78c13a58b8f280a905b8d9436f70a48626f6fb2",
|
| 10 |
"fastplms/__init__.py": "sha256:4fb3196022ca8ec699d59d09bdbc5f0184195552b773698ab9b061fe3cd7df12",
|
| 11 |
"fastplms/attention/__init__.py": "sha256:f60b9fecfb4bcb37a4e7c26dc2f752b9035f9cbad627b4a84213f3a92ec88f7d",
|
| 12 |
"fastplms/attention/_core.py": "sha256:8f7ec5b65bd8b6c6fa4951d50d1c0e499abf03ae00914794b51fc410201e3e33",
|
|
|
|
| 23 |
"fastplms/models/esm_plusplus/__init__.py": "sha256:e3b0c44298fc1c149afbf4c8996fb92427ae41e4649b934ca495991b7852b855",
|
| 24 |
"fastplms/models/esm_plusplus/modeling_esm_plusplus.py": "sha256:7fc8047100a2d0ca230bc687126c4ccd3f46c0e51cefd39413e72e3842e14012",
|
| 25 |
"fastplms/models/ttt.py": "sha256:a0df4e98b02120d423e3c7ca9b866a8d0e3748b9076042a0102a838a11aed046",
|
| 26 |
+
"fastplms/registry.py": "sha256:afca271911b651a882345b74a58366494a1d784e4a48c8683a87f5508f4ba16e",
|
| 27 |
"fastplms/runtime.py": "sha256:110018646d6f248cedab140a030c3065e1b062b61f6aff659c231e538614bc01",
|
| 28 |
+
"fastplms_bundle.py": "sha256:0cd2faa85684adf6044c1ebf876ccd5db2af2107ed286ece33381388a9365491",
|
| 29 |
+
"modeling_fastplms.py": "sha256:844a18adbe8fe1a101ca7cdc9b1dbc2dc44cf2515af114d6473a3bbdbf9f7111",
|
| 30 |
"special_tokens_map.json": "sha256:0b7245ec86c8c3aeaf61523ba70dfa79be137e6283f127bd651adc30b4f15c74",
|
| 31 |
"tokenizer.json": "sha256:8d3447b278176e65fb3ef0224472927bf5fee3be46ea2bd77fad0111423cee1f",
|
| 32 |
"tokenizer_config.json": "sha256:e8d8e40c9f92b334f0272e80bb65ed4043cb9836523cbae899e9859e8cbb8833"
|
| 33 |
},
|
| 34 |
"model_id": "esmc_small",
|
| 35 |
"redistributable": true,
|
| 36 |
+
"release_tool_revision": "1b9ce023f1e06571cf3e6324be0610ffa53e0a4a",
|
| 37 |
+
"release_tool_sha256": "1459b5d7d13d9b07bd97b3eee764f2ce73623e15e32d07ddf6825c2a9509afb9",
|
| 38 |
+
"runtime_bundle_sha256": "62d4b093eb88e1d68cfd6d88fe09c982156c04b7c508417709c8e41536ae19ff",
|
| 39 |
+
"runtime_revision": "1b9ce023f1e06571cf3e6324be0610ffa53e0a4a",
|
| 40 |
"schema_version": 2,
|
| 41 |
"scope": "runtime-only",
|
| 42 |
+
"source_tree_sha256": "2c23b8861c885e2522cf035124160e01c696f699a83ef7e0c8f3f06c95e3c34a",
|
| 43 |
"weights": {
|
| 44 |
"repo_id": "Synthyra/ESMplusplus_small",
|
| 45 |
"revision": "46c5f7d562e47d4c14165b424c71ab7db008e6fb"
|