minor changes: deepgo configs + scope

Author: aditya0by0

chebai/preprocessing/datasets/scope/scope.py

@@ -128,7 +128,7 @@ def _download_pdb_sequence_data(self) -> None:
         os.makedirs(os.path.dirname(pdb_seq_file_path), exist_ok=True)
 
         if not os.path.isfile(pdb_seq_file_path):
-            print(f"Downloading PDB sequence data....")
+            print(f"Missing PDB raw data, Downloading PDB sequence data....")
 
             # Create a temporary file
             with NamedTemporaryFile(delete=False) as tf:

configs/data/deepGO/deepgo2_esm2.yml

@@ -2,4 +2,4 @@ class_path: chebai.preprocessing.datasets.deepGO.go_uniprot.DeepGO2MigratedData
 init_args:
   go_branch: "MF"
   max_sequence_length: 1000
-  use_esm2_embeddings: True
+  use_esm2_embeddings: True

configs/data/deepGO/deepgo_2_migrated_data.yml

@@ -2,3 +2,4 @@ class_path: chebai.preprocessing.datasets.deepGO.go_uniprot.DeepGO2MigratedData
 init_args:
   go_branch: "MF"
   max_sequence_length: 1000
+  use_esm2_embeddings: True