remove chebi imports and libraries

Author: aditya0by0

chebai/preprocessing/reader.py

@@ -3,8 +3,6 @@
 from typing import Any, Dict, List, Optional, Tuple
 from urllib.error import HTTPError
 
-import deepsmiles
-import selfies as sf
 import torch
 from esm import Alphabet
 from esm.model.esm2 import ESM2
@@ -13,8 +11,6 @@
     load_model_and_alphabet_core,
     load_model_and_alphabet_local,
 )
-from pysmiles.read_smiles import _tokenize
-from transformers import RobertaTokenizerFast
 
 from chebai.preprocessing.collate import DefaultCollator, RaggedCollator
 

setup.py

@@ -34,17 +34,13 @@
         "urllib3",
         "transformers",
         "fastobo",
-        "pysmiles==1.1.2",
         "scikit-network",
         "svgutils",
         "matplotlib",
-        "rdkit",
-        "selfies",
         "lightning>=2.5",
         "jsonargparse[signatures]>=4.17",
         "omegaconf",
         "seaborn",
-        "deepsmiles",
         "iterative-stratification",
         "wandb",
         "chardet",