remove batch_size references

app.py

@@ -22,7 +22,6 @@ from mosaicfm.tokenizer import GeneVocab
 
 # hardcoded configuration
 EMB_KEY = "X_tx1-70m"
-BATCH_SIZE = 64
 APP_TITLE = "Tx1-70M Embeddings"
 APP_DESC = """
 Upload an AnnData, compute Tx1-70M embeddings,
@@ -267,7 +266,7 @@ def _embed(adata_bytes, layer_name, feature_col, progress):
     return cell_array, layers, var_cols, obs_cols, adata_persisted
 
 # processing pipeline given user inputs
-def run_pipeline(fileobj, layer_choice, var_choice, obs_choice, batch_size=64, progress=gr.Progress(track_tqdm=False)):
+def run_pipeline(fileobj, layer_choice, var_choice, obs_choice, progress=gr.Progress(track_tqdm=False)):
 
     # make sure user inputs exist
     if fileobj is None:
@@ -286,7 +285,7 @@ def run_pipeline(fileobj, layer_choice, var_choice, obs_choice, batch_size=64, p
         adata_bytes=adata_bytes,
         layer_name=(None if layer_choice in [None, "", "<use .X>"] else layer_choice),
         feature_col=(None if var_choice in [None, ""] else var_choice),
-        batch_size=int(batch_size),
+        progress=progress
     )
 
     # rebuild AnnData on CPU