dayhoff-tools 1.1.26__py3-none-any.whl → 1.1.28__py3-none-any.whl

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Files changed (5) hide show
  1. dayhoff_tools/embedders.py +0 -1
  2. {dayhoff_tools-1.1.26.dist-info → dayhoff_tools-1.1.28.dist-info}/METADATA +12 -1
  3. {dayhoff_tools-1.1.26.dist-info → dayhoff_tools-1.1.28.dist-info}/RECORD +5 -5
  4. {dayhoff_tools-1.1.26.dist-info → dayhoff_tools-1.1.28.dist-info}/WHEEL +0 -0
  5. {dayhoff_tools-1.1.26.dist-info → dayhoff_tools-1.1.28.dist-info}/entry_points.txt +0 -0
dayhoff_tools/embedders.py CHANGED
@@ -1,7 +1,6 @@
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  import logging
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  import os
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  import time
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- from abc import ABC, abstractmethod
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  from typing import Dict, List, Literal, Optional, Tuple, cast
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  import h5py
{dayhoff_tools-1.1.26.dist-info → dayhoff_tools-1.1.28.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.3
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  Name: dayhoff-tools
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- Version: 1.1.26
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+ Version: 1.1.28
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  Summary: Common tools for all the repos at Dayhoff Labs
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  Author: Daniel Martin-Alarcon
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  Author-email: dma@dayhofflabs.com
@@ -10,22 +10,33 @@ Classifier: Programming Language :: Python :: 3.10
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  Classifier: Programming Language :: Python :: 3.11
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  Classifier: Programming Language :: Python :: 3.12
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  Classifier: Programming Language :: Python :: 3.13
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+ Provides-Extra: embedders
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  Provides-Extra: full
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  Requires-Dist: biopython (>=1.84) ; extra == "full"
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+ Requires-Dist: biopython (>=1.85) ; extra == "embedders"
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  Requires-Dist: boto3 (>=1.36.8) ; extra == "full"
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  Requires-Dist: docker (>=7.1.0) ; extra == "full"
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+ Requires-Dist: fair-esm (>=2.0.0) ; extra == "embedders"
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  Requires-Dist: fair-esm (>=2.0.0) ; extra == "full"
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  Requires-Dist: firebase-admin (>=6.5.0)
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  Requires-Dist: h5py (>=3.11.0) ; extra == "full"
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+ Requires-Dist: h5py (>=3.13.0) ; extra == "embedders"
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+ Requires-Dist: numpy (>=1.26.4) ; extra == "embedders"
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+ Requires-Dist: pandas (>=2.2.3) ; extra == "embedders"
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  Requires-Dist: pandas (>=2.2.3) ; extra == "full"
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  Requires-Dist: pyyaml (>=6.0)
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  Requires-Dist: questionary (>=2.0.1)
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  Requires-Dist: rdkit-pypi (>=2022.9.5) ; extra == "full"
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  Requires-Dist: requests (>=2.31.0)
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+ Requires-Dist: sentencepiece (>=0.2.0) ; extra == "embedders"
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  Requires-Dist: sentencepiece (>=0.2.0) ; extra == "full"
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  Requires-Dist: sqlalchemy (>=2.0.40,<3.0.0) ; extra == "full"
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  Requires-Dist: toml (>=0.10)
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+ Requires-Dist: torch (>=2.4.0) ; extra == "embedders"
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+ Requires-Dist: tqdm (>=4.67.1) ; extra == "embedders"
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+ Requires-Dist: tqdm (>=4.67.1) ; extra == "full"
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  Requires-Dist: transformers (==4.36.2) ; extra == "full"
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+ Requires-Dist: transformers (>=4.36.2) ; extra == "embedders"
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  Requires-Dist: typer (>=0.9.0)
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  Description-Content-Type: text/markdown
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{dayhoff_tools-1.1.26.dist-info → dayhoff_tools-1.1.28.dist-info}/RECORD RENAMED
@@ -13,7 +13,7 @@ dayhoff_tools/deployment/deploy_utils.py,sha256=StFwbqnr2_FWiKVg3xnJF4kagTHzndqq
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  dayhoff_tools/deployment/job_runner.py,sha256=4tmdplpvqSE9bVxRWHo2U5kwkYrYod0Uwzpg2Q7qG5o,4850
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  dayhoff_tools/deployment/processors.py,sha256=Ao4hU4rEXlyvLq-8wt8syqnfB05N7fIKYtjjdKCmx3g,22695
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  dayhoff_tools/deployment/swarm.py,sha256=MGcS2_x4RNFtnVjWlU_SwNfhICz8NlGYr9cYBK4ZKDA,21688
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- dayhoff_tools/embedders.py,sha256=CRgcb2z7KeeFrRQawyUZuJ4Yi0-J5jSr0hwuRhjG_FI,36513
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+ dayhoff_tools/embedders.py,sha256=svP_ksm3FdyVZ8i8R9R5uoGu2qI_hVQ_eztG0drXkN8,36477
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  dayhoff_tools/fasta.py,sha256=HJ25D_u5F-tU6fZMkJfIhvqMSmnR32JK1QdCPXoHJ5g,49785
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  dayhoff_tools/file_ops.py,sha256=JlGowvr-CUJFidV-4g_JmhUTN9bsYuaxtqKmnKomm-Q,8506
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  dayhoff_tools/h5.py,sha256=j1nxxaiHsMidVX_XwB33P1Pz9d7K8ZKiDZwJWQUUQSY,21158
@@ -26,7 +26,7 @@ dayhoff_tools/intake/uniprot.py,sha256=BZYJQF63OtPcBBnQ7_P9gulxzJtqyorgyuDiPeOJq
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  dayhoff_tools/logs.py,sha256=DKdeP0k0kliRcilwvX0mUB2eipO5BdWUeHwh-VnsICs,838
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  dayhoff_tools/sqlite.py,sha256=jV55ikF8VpTfeQqqlHSbY8OgfyfHj8zgHNpZjBLos_E,18672
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  dayhoff_tools/warehouse.py,sha256=TqV8nex1AluNaL4JuXH5zuu9P7qmE89lSo6f_oViy6U,14965
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- dayhoff_tools-1.1.26.dist-info/METADATA,sha256=WOHRt3XMTVq31wBhxgQQKqPNbJglDl1YfXIusY-ATZs,2225
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- dayhoff_tools-1.1.26.dist-info/WHEEL,sha256=b4K_helf-jlQoXBBETfwnf4B04YC67LOev0jo4fX5m8,88
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- dayhoff_tools-1.1.26.dist-info/entry_points.txt,sha256=iAf4jteNqW3cJm6CO6czLxjW3vxYKsyGLZ8WGmxamSc,49
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- dayhoff_tools-1.1.26.dist-info/RECORD,,
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+ dayhoff_tools-1.1.28.dist-info/METADATA,sha256=Gwl1e-66Io-xOtY7-r0F066pJGPAj_jngayua0nGsL4,2810
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+ dayhoff_tools-1.1.28.dist-info/WHEEL,sha256=b4K_helf-jlQoXBBETfwnf4B04YC67LOev0jo4fX5m8,88
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+ dayhoff_tools-1.1.28.dist-info/entry_points.txt,sha256=iAf4jteNqW3cJm6CO6czLxjW3vxYKsyGLZ8WGmxamSc,49
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+ dayhoff_tools-1.1.28.dist-info/RECORD,,