Update ui/ui_core.py

ui/ui_core.py

@@ -1,32 +1,42 @@
-import gradio as gr
-import os
 import sys
+import os
 import pandas as pd
 import pdfplumber
+import gradio as gr
 
-# Add src to Python path
+# ✅ Add src to Python path
 sys.path.insert(0, os.path.abspath(os.path.join(os.path.dirname(__file__), "..", "src")))
 from txagent.txagent import TxAgent
 
 
-def extract_all_text_from_csv(file_path):
+def extract_all_text_from_csv_or_excel(file_path, progress=None, index=0, total=1):
     try:
-        df = pd.read_csv(file_path, low_memory=False)
+        if file_path.endswith(".csv"):
+            df = pd.read_csv(file_path, low_memory=False)
+        elif file_path.endswith((".xls", ".xlsx")):
+            df = pd.read_excel(file_path)
+        else:
+            return f"Unsupported spreadsheet format: {file_path}"
+        if progress:
+            progress((index + 1) / total, desc=f"Processed table: {os.path.basename(file_path)}")
         return df.to_string(index=False)
     except Exception as e:
-        return f"Error parsing CSV: {e}"
+        return f"Error parsing file: {e}"
 
 
-def extract_all_text_from_pdf(file_path):
+def extract_all_text_from_pdf(file_path, progress=None, index=0, total=1):
     extracted = []
     try:
         with pdfplumber.open(file_path) as pdf:
-            for page in pdf.pages:
+            num_pages = len(pdf.pages)
+            for i, page in enumerate(pdf.pages):
                 tables = page.extract_tables()
                 for table in tables:
                     for row in table:
                         if any(row):
                             extracted.append("\t".join([cell or "" for cell in row]))
+                if progress:
+                    progress((index + i / num_pages) / total, desc=f"Parsing PDF: {os.path.basename(file_path)} ({i+1}/{num_pages})")
         return "\n".join(extracted)
     except Exception as e:
         return f"Error parsing PDF: {e}"
@@ -34,45 +44,39 @@ def extract_all_text_from_pdf(file_path):
 
 def create_ui(agent: TxAgent):
     with gr.Blocks(theme=gr.themes.Soft()) as demo:
-        gr.Markdown("<h1 style='text-align: center;'>🧠 CPS: Clinical Processing System</h1>")
-        chatbot = gr.Chatbot(label="CPS Assistant", height=600, type="messages")
-
-        # Hidden file upload, attached to input bar
-        with gr.Row():
-            uploaded_files = gr.File(
-                label="📎", file_types=[".pdf", ".txt", ".docx", ".jpg", ".png", ".csv"],
-                file_count="multiple", visible=False
-            )
-
-            with gr.Column(scale=10):
-                message_input = gr.Textbox(
-                    placeholder="Type your medical question or upload files...", show_label=False, scale=10
-                )
-
-            with gr.Column(scale=1, min_width=60):
-                file_icon = gr.UploadButton("📎", file_types=[".pdf", ".csv", ".docx", ".txt", ".jpg", ".png"], file_count="multiple")
-
-            send_button = gr.Button("Send", variant="primary")
-
+        gr.Markdown("<h1 style='text-align: center;'>💊 TxAgent: Therapeutic Reasoning</h1>")
+        chatbot = gr.Chatbot(label="TxAgent", height=600, type="messages")
+
+        file_upload = gr.File(
+            label="Upload Medical File",
+            file_types=[".pdf", ".txt", ".docx", ".jpg", ".png", ".csv", ".xls", ".xlsx"],
+            file_count="multiple"
+        )
+        message_input = gr.Textbox(placeholder="Ask a biomedical question or just upload the files...", show_label=False)
+        send_button = gr.Button("Send", variant="primary")
         conversation_state = gr.State([])
 
-        def handle_chat(message, history, conversation, new_files):
+        def handle_chat(message, history, conversation, uploaded_files, progress=gr.Progress()):
             context = (
                 "You are a clinical AI reviewing medical interview or form data. "
                 "Analyze the extracted content and reason step-by-step about what the doctor could have missed. "
                 "Don't answer yet — just reason."
             )
 
-            if new_files:
+            if uploaded_files:
                 extracted_text = ""
-                for file in new_files:
+                total_files = len(uploaded_files)
+
+                for index, file in enumerate(uploaded_files):
                     path = file.name
-                    if path.endswith(".csv"):
-                        extracted_text += extract_all_text_from_csv(path) + "\n"
+                    if path.endswith((".csv", ".xls", ".xlsx")):
+                        extracted_text += extract_all_text_from_csv_or_excel(path, progress, index, total_files) + "\n"
                     elif path.endswith(".pdf"):
-                        extracted_text += extract_all_text_from_pdf(path) + "\n"
+                        extracted_text += extract_all_text_from_pdf(path, progress, index, total_files) + "\n"
                     else:
                         extracted_text += f"(Uploaded file: {os.path.basename(path)})\n"
+                        if progress:
+                            progress((index + 1) / total_files, desc=f"Skipping unsupported file: {os.path.basename(path)}")
 
                 message = f"{context}\n\n---\n{extracted_text.strip()}\n---\n\nNow reason what the doctor might have missed."
 
@@ -84,17 +88,18 @@ def create_ui(agent: TxAgent):
                 max_token=8192,
                 call_agent=False,
                 conversation=conversation,
-                uploaded_files=new_files,
+                uploaded_files=uploaded_files,
                 max_round=30
             )
             for update in generator:
                 yield update
 
-        # Bind send logic
-        file_icon.upload(fn=None, inputs=[], outputs=[uploaded_files])
-        send_button.click(fn=handle_chat, inputs=[message_input, chatbot, conversation_state, uploaded_files], outputs=chatbot)
-        message_input.submit(fn=handle_chat, inputs=[message_input, chatbot, conversation_state, uploaded_files], outputs=chatbot)
+        inputs = [message_input, chatbot, conversation_state, file_upload]
+        send_button.click(fn=handle_chat, inputs=inputs, outputs=chatbot)
+        message_input.submit(fn=handle_chat, inputs=inputs, outputs=chatbot)
 
-        gr.Examples([["Upload your medical form and ask what the doctor might’ve missed."]], inputs=message_input)
+        gr.Examples([
+            ["Upload the files"],
+        ], inputs=message_input)
 
     return demo