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DeepSEQreen_fast_build
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libokj commited on
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Update requirements.txt

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  1. requirements.txt +7 -4
requirements.txt CHANGED
@@ -1,12 +1,13 @@
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  # deep learning
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  # Install with conda
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- # torch>=2.0
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- # torch_geometric
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- lightning>=2.0
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  torchmetrics
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  transformers
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  scikit-learn
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  dgl
 
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  dgllife
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  # configuration and utilities
@@ -14,17 +15,19 @@ hydra-core
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  pandas
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  swifter
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  tensorboard
 
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  # model-specific requirements
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  subword-nmt # MolTrans
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  tape_proteins # TransformerCPI2
 
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  fair-esm # CoaDTI-pro
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  # apex # recommended by TAPE-BERT
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  # feature extraction
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  rdkit
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  mordred
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- networkx>=3.0
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  mhfp
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  panel
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  plotly
 
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  # deep learning
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  # Install with conda
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+ torch >= 2.1
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+ torch_geometric
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+ lightning >= 2.1
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  torchmetrics
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  transformers
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  scikit-learn
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  dgl
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+ dglgo
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  dgllife
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  # configuration and utilities
 
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  pandas
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  swifter
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  tensorboard
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+ biopython
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  # model-specific requirements
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  subword-nmt # MolTrans
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  tape_proteins # TransformerCPI2
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+ gensim
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  fair-esm # CoaDTI-pro
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  # apex # recommended by TAPE-BERT
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  # feature extraction
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  rdkit
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  mordred
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+ networkx >= 3.2
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  mhfp
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  panel
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  plotly