Update app.py
Browse files
app.py
CHANGED
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import os
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import base64
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import gradio as gr
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import pandas as pd
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from groq import Groq
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import io
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import datetime
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import re
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client = Groq(
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api_key=os.environ.get("GROQ_API_KEY")
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#
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# Process patient history file
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def process_patient_history(file):
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if file is None:
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return ""
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try:
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# Check file extension
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file_ext = os.path.splitext(file.name)[1].lower()
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if file_ext == '.txt':
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# Read text file
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return content
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elif file_ext in ['.csv', '.xlsx', '.xls']:
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# Read spreadsheet file
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if file_ext == '.csv':
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df = pd.read_csv(file.name)
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else:
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df = pd.read_excel(file.name)
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# Convert dataframe to formatted string
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formatted_data = "PATIENT INFORMATION:\n\n"
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return formatted_data
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else:
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return "Unsupported file format. Please upload a .txt, .csv, or .xlsx file."
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except Exception as e:
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return f"Error processing patient history file: {str(e)}"
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if image is None:
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return "<strong style='color:red'>No image provided.</strong>"
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#
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if not isinstance(image, Image.Image):
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#
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timestamp = datetime.datetime.now().strftime("%Y-%m-%d %H:%M:%S")
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# Create chat completion with vision model
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vision_prompt = f"""Analyze this ECG image carefully. You are a cardiologist analyzing an electrocardiogram (ECG).
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Extract and report all visible parameters, including but not limited to:
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1. Heart rate
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2. PR interval
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3. QRS duration
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4. QT/QTc interval
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5. P wave morphology
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6. ST segment changes
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7. T wave morphology
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8. Rhythm classification
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9. Specific patterns (if any)
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Report exact numerical values where visible. Format your response using HTML list elements for better readability.
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If certain measurements aren't visible in the image, indicate that they cannot be determined.
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If you notice any abnormalities or concerning patterns, highlight them clearly but avoid making definitive diagnoses.
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Format your response like this:
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<h3>ECG Report</h3>
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<ul>
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<li><strong>Date and Time:</strong> {timestamp}</li>
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<li><strong>Heart Rate:</strong> [value] bpm</li>
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<li><strong>PR Interval:</strong> [value] ms</li>
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<!-- Other measurements -->
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</ul>
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<h3>Additional Observations</h3>
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<ul>
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<li>Observation 1</li>
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<li>Observation 2</li>
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</ul>
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<h3>Conclusion</h3>
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<p>[Your conclusion text]</p>
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Important formatting instructions:
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- Use HTML elements for structure (<ul>, <li>, <strong>, <h3>, etc.)
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- Do not use asterisks (**) for emphasis - use proper HTML formatting instead
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- For any urgent findings, use <span style="color:red"> to highlight them
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"""
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try:
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model=vision_model,
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)
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# Process the response to convert any remaining ** to HTML tags
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ecg_analysis = re.sub(r'\*\*([^*]+)\*\*', r'<strong>\1</strong>', ecg_analysis)
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# Make sure all headers are properly formatted (with complete pattern)
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ecg_analysis = re.sub(r'^(#+)\s+(.+)$', r'<h3>\2</h3>', ecg_analysis, flags=re.MULTILINE)
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# If there's no HTML formatting at all, wrap in basic structure
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if not re.search(r'<[^>]+>', ecg_analysis):
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lines = ecg_analysis.split('\n')
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formatted_html = "<h3>ECG Report</h3>\n<ul>\n"
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for line in lines:
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if line.strip():
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# Try to identify key-value pairs
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match = re.match(r'^([^:]+):\s*(.+)$', line)
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if match:
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key, value = match.groups()
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formatted_html += f" <li><strong>{key}:</strong> {value}</li>\n"
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else:
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formatted_html += f" <li>{line}</li>\n"
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formatted_html += "</ul>"
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ecg_analysis = formatted_html
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return ecg_analysis
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except Exception as e:
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#
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return "<strong style='color:red'>Please analyze an ECG image first.</strong>"
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# Get current timestamp
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timestamp = datetime.datetime.now().strftime("%Y-%m-%d %H:%M:%S")
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# Construct prompt based on available information
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if patient_history and patient_history.strip():
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prompt = f"""You are a highly trained cardiologist assistant. Based on the ECG analysis below and the patient's history, provide a comprehensive assessment of the patient's cardiac status. Indicate clearly if there are any concerning findings that require immediate medical attention.
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- Do not use asterisks (**) for emphasis - use proper HTML formatting instead
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- For any urgent findings, use <span style="color:red"> to highlight them
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"""
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try:
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assessment_completion =
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messages=[
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{
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"role": "system",
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}
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],
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model=chat_model,
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temperature=0.2,
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)
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assessment_text = assessment_completion.choices[0].message.content
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# Process the response to convert any remaining ** to HTML tags
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assessment_text = re.sub(r'\*\*([^*]+)\*\*', r'<strong>\1</strong>', assessment_text)
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# Make sure all headers are properly formatted (with complete pattern)
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assessment_text = re.sub(r'^(#+)\s+(.+)$', r'<h3>\2</h3>', assessment_text, flags=re.MULTILINE)
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# If there's no HTML formatting at all, wrap in basic structure
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if not re.search(r'<[^>]+>', assessment_text):
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sections = [
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"Summary of Findings",
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"Key Abnormalities",
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"Potential Clinical Implications",
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"Recommendation",
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"Differential Considerations"
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]
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# Split by sections and format
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formatted_html = ""
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current_section = "Summary of Findings" # Default
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content_lines = []
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lines = assessment_text.split('\n')
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for line in lines:
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return assessment_text
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except Exception as e:
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return f"<strong style='color:red'>Error generating assessment:</strong> {str(e)}"
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if not message.strip():
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return "", chat_history
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# Get current timestamp
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timestamp = datetime.datetime.now().strftime("%Y-%m-%d %H:%M:%S")
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# Prepare chat context
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context = f"""
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{ecg_analysis}
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MEDICAL ASSESSMENT:
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{assessment}
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"""
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if patient_history and patient_history.strip():
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context += f"""PATIENT HISTORY:
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{patient_history}
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"""
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# Construct full chat history for context
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messages = [
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{
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"role": "system",
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"content": f"You are a medical AI assistant specialized in cardiology
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}
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]
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# Add chat history to the context (limited to last
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for
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messages.append({"role": "user", "content":
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messages
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# Add the current message
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messages.append({"role": "user", "content": message})
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try:
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chat_completion =
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messages=messages,
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model=chat_model,
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temperature=0.3,
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)
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response = chat_completion.choices[0].message.content
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# Process any remaining asterisks to HTML tags in the response
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response = re.sub(r'\*\*([^*]+)\*\*', r'<strong>\1</strong>', response)
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chat_history.append((message, response))
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return "", chat_history
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except Exception as e:
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error_message = f"<strong style='color:red'>Error in chat:</strong> {str(e)}"
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chat_history.append((message, error_message))
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return "", chat_history
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# Create Gradio interface
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with gr.Blocks(title="Cardiac ECG Analysis System", theme=gr.themes.Soft()) as app:
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# Session state to store data
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ecg_analysis_state = gr.State("")
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gr.Markdown("# π« Cardiac ECG Analysis System")
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gr.Markdown("Upload an ECG image and optional patient history to get an automated analysis and assessment.")
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with gr.Tabs():
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with gr.TabItem("π» Main Interface"):
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with gr.Row():
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with gr.Column(scale=1):
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# Input components
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with gr.Group():
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gr.Markdown("### π ECG Image")
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ecg_image = gr.Image(type="pil", label="Upload ECG Image")
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# Display fixed model info
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gr.Markdown("**Vision Model:**
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analyze_button = gr.Button("Analyze ECG Image", variant="primary")
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with gr.Group():
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gr.Markdown("### π Patient Information")
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patient_history_text = gr.Textbox(
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lines=8,
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label="Patient History (Manual Entry)",
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placeholder="Enter patient's medical history, age, sex, symptoms, medications, etc."
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patient_history_file = gr.File(
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label="Upload Patient History File (Optional, .txt, .csv, or .xlsx)",
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file_types=[".txt", ".csv", ".xlsx", ".xls"]
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load_history_button = gr.Button("Load Patient History from File")
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with gr.Group():
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gr.Markdown("### π§ Assessment Settings")
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# Display fixed model info
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assess_button = gr.Button("Generate Assessment", variant="primary")
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with gr.Column(scale=1):
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# Output components
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with gr.Group():
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gr.Markdown("### π ECG Analysis Results")
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ecg_analysis_output = gr.HTML(label="ECG Analysis", elem_id="ecg-analysis")
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with gr.Group():
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gr.Markdown("### π Medical Assessment")
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assessment_output = gr.HTML(label="Assessment", elem_id="assessment-output")
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gr.Markdown("## π¨ββοΈ Doctor's Consultation")
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gr.Markdown("Ask follow-up questions about the patient's ECG results and medical condition.")
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with gr.Group():
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chatbot = gr.Chatbot(label="Consultation", height=400)
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with gr.Row():
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message = gr.Textbox(
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lines=2,
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label="Doctor's Question",
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placeholder="Ask a question about this patient's cardiac status...",
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scale=4
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chat_button = gr.Button("Send", scale=1, variant="primary")
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with gr.TabItem("βΉοΈ Instructions"):
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gr.Markdown("""
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## How to Use This Application
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### Step 1: Upload and Analyze ECG
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### Step 2: Add Patient Information (Optional)
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### Step 3: Generate Assessment
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### Step 4: Consultation
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### Important Notes
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""")
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#
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analyze_button.click(
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analyze_ecg_image,
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-
inputs=[ecg_image],
|
| 521 |
outputs=ecg_analysis_output
|
| 522 |
-
).then(
|
| 523 |
-
lambda x: x, # Pass through function to update state
|
| 524 |
-
inputs=ecg_analysis_output,
|
| 525 |
-
outputs=ecg_analysis_state
|
| 526 |
)
|
| 527 |
-
|
| 528 |
-
|
| 529 |
-
if file is None:
|
| 530 |
-
return "No file uploaded."
|
| 531 |
-
processed_text = process_patient_history(file)
|
| 532 |
-
return processed_text
|
| 533 |
-
|
| 534 |
load_history_button.click(
|
| 535 |
-
|
| 536 |
inputs=[patient_history_file],
|
| 537 |
outputs=[patient_history_text]
|
| 538 |
)
|
| 539 |
-
|
|
|
|
| 540 |
assess_button.click(
|
| 541 |
-
generate_assessment,
|
| 542 |
-
inputs=[ecg_analysis_output, patient_history_text],
|
| 543 |
outputs=assessment_output
|
| 544 |
)
|
| 545 |
-
|
|
|
|
| 546 |
chat_button.click(
|
| 547 |
-
doctor_chat,
|
| 548 |
-
inputs=[message, chatbot, ecg_analysis_output, patient_history_text, assessment_output],
|
| 549 |
-
outputs=[message, chatbot]
|
| 550 |
)
|
| 551 |
-
|
| 552 |
-
# Also trigger chat on Enter key
|
| 553 |
message.submit(
|
| 554 |
doctor_chat,
|
| 555 |
inputs=[message, chatbot, ecg_analysis_output, patient_history_text, assessment_output],
|
| 556 |
-
outputs=[message, chatbot]
|
| 557 |
)
|
| 558 |
|
|
|
|
| 559 |
# Launch the app
|
| 560 |
if __name__ == "__main__":
|
|
|
|
|
|
|
| 561 |
app.launch()
|
|
|
|
| 1 |
import os
|
| 2 |
+
# import base64 # No longer needed for Gemini vision part
|
| 3 |
import gradio as gr
|
| 4 |
import pandas as pd
|
| 5 |
from groq import Groq
|
|
|
|
| 7 |
import io
|
| 8 |
import datetime
|
| 9 |
import re
|
| 10 |
+
import google.generativeai as genai # Added for Gemini
|
| 11 |
+
from google.generativeai import types # Added for Gemini
|
| 12 |
|
| 13 |
+
# Initialize Groq client (for chat/assessment)
|
| 14 |
+
groq_client = Groq(
|
|
|
|
| 15 |
api_key=os.environ.get("GROQ_API_KEY")
|
| 16 |
)
|
| 17 |
|
| 18 |
+
# NOTE: Gemini client initialization will happen inside the analyze_ecg_image function
|
| 19 |
+
# Ensure GEMINI_API_KEY is set in your environment variables
|
| 20 |
+
|
| 21 |
+
# Function to encode images to base64 - REMOVED as not needed for Gemini bytes input
|
| 22 |
+
# def encode_image(image):
|
| 23 |
+
# buffered = io.BytesIO()
|
| 24 |
+
# image.save(buffered, format="JPEG")
|
| 25 |
+
# return base64.b64encode(buffered.getvalue()).decode('utf-8')
|
| 26 |
|
| 27 |
+
# Process patient history file (Unchanged)
|
| 28 |
def process_patient_history(file):
|
| 29 |
if file is None:
|
| 30 |
return ""
|
| 31 |
+
|
| 32 |
try:
|
| 33 |
# Check file extension
|
| 34 |
file_ext = os.path.splitext(file.name)[1].lower()
|
| 35 |
+
|
| 36 |
if file_ext == '.txt':
|
| 37 |
# Read text file
|
| 38 |
+
# Gradio File object might need .name for path, let's assume it provides a file-like object
|
| 39 |
+
with open(file.name, 'r', encoding='utf-8') as f:
|
| 40 |
+
content = f.read()
|
| 41 |
+
# If file is already an IO object (depends on Gradio version/usage)
|
| 42 |
+
# content = file.read().decode('utf-8')
|
| 43 |
return content
|
| 44 |
+
|
| 45 |
elif file_ext in ['.csv', '.xlsx', '.xls']:
|
| 46 |
# Read spreadsheet file
|
| 47 |
if file_ext == '.csv':
|
| 48 |
df = pd.read_csv(file.name)
|
| 49 |
else:
|
| 50 |
df = pd.read_excel(file.name)
|
| 51 |
+
|
| 52 |
# Convert dataframe to formatted string
|
| 53 |
formatted_data = "PATIENT INFORMATION:\n\n"
|
| 54 |
+
if not df.empty:
|
| 55 |
+
# Assuming the first row contains the relevant patient data
|
| 56 |
+
for column in df.columns:
|
| 57 |
+
# Handle potential missing values gracefully
|
| 58 |
+
value = df.iloc[0].get(column, 'N/A')
|
| 59 |
+
formatted_data += f"{column}: {value}\n"
|
| 60 |
+
else:
|
| 61 |
+
formatted_data += "Spreadsheet is empty or format is not recognized correctly."
|
| 62 |
+
|
| 63 |
return formatted_data
|
| 64 |
+
|
| 65 |
else:
|
| 66 |
return "Unsupported file format. Please upload a .txt, .csv, or .xlsx file."
|
| 67 |
+
|
| 68 |
except Exception as e:
|
| 69 |
return f"Error processing patient history file: {str(e)}"
|
| 70 |
|
| 71 |
+
|
| 72 |
+
# Extract ECG readings from image using Gemini Vision model
|
| 73 |
+
def analyze_ecg_image(image, vision_model="gemini-2.0-flash-exp"):
|
| 74 |
+
# Fixed model
|
| 75 |
+
vision_model = "gemini-2.0-flash-exp"
|
| 76 |
+
|
| 77 |
if image is None:
|
| 78 |
return "<strong style='color:red'>No image provided.</strong>"
|
| 79 |
+
|
| 80 |
+
# Ensure image is PIL Image
|
| 81 |
if not isinstance(image, Image.Image):
|
| 82 |
+
try:
|
| 83 |
+
image = Image.open(image)
|
| 84 |
+
except Exception as e:
|
| 85 |
+
return f"<strong style='color:red'>Error opening image: {str(e)}</strong>"
|
| 86 |
+
|
| 87 |
+
# --- Gemini Specific Part ---
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 88 |
try:
|
| 89 |
+
# Get Gemini API Key
|
| 90 |
+
gemini_api_key = os.environ.get("GEMINI_API_KEY")
|
| 91 |
+
if not gemini_api_key:
|
| 92 |
+
return "<strong style='color:red'>GEMINI_API_KEY environment variable not set.</strong>"
|
| 93 |
+
|
| 94 |
+
# Initialize Gemini client
|
| 95 |
+
# Using configure for simplicity if preferred, or Client() directly
|
| 96 |
+
# genai.configure(api_key=gemini_api_key)
|
| 97 |
+
# model = genai.GenerativeModel(model_name=vision_model)
|
| 98 |
+
gemini_client = genai.Client(api_key=gemini_api_key)
|
| 99 |
+
|
| 100 |
+
|
| 101 |
+
# Convert PIL image to bytes (JPEG format)
|
| 102 |
+
buffered = io.BytesIO()
|
| 103 |
+
# Ensure image is in RGB format if it's RGBA or P which might cause issues
|
| 104 |
+
if image.mode in ('RGBA', 'P'):
|
| 105 |
+
image = image.convert('RGB')
|
| 106 |
+
image.save(buffered, format="JPEG")
|
| 107 |
+
image_bytes = buffered.getvalue()
|
| 108 |
+
|
| 109 |
+
# Get current timestamp (computer time)
|
| 110 |
+
timestamp = datetime.datetime.now().strftime("%Y-%m-%d %H:%M:%S")
|
| 111 |
+
|
| 112 |
+
# Create prompt for Gemini
|
| 113 |
+
vision_prompt = f"""Analyze this ECG image carefully. You are a cardiologist analyzing an electrocardiogram (ECG).
|
| 114 |
+
|
| 115 |
+
Extract and report all visible parameters, including but not limited to:
|
| 116 |
+
1. Heart rate
|
| 117 |
+
2. PR interval
|
| 118 |
+
3. QRS duration
|
| 119 |
+
4. QT/QTc interval
|
| 120 |
+
5. P wave morphology
|
| 121 |
+
6. ST segment changes
|
| 122 |
+
7. T wave morphology
|
| 123 |
+
8. Rhythm classification
|
| 124 |
+
9. Specific patterns (if any)
|
| 125 |
+
|
| 126 |
+
Report exact numerical values where visible. Format your response using HTML list elements for better readability.
|
| 127 |
+
|
| 128 |
+
If certain measurements aren't visible in the image, indicate that they cannot be determined.
|
| 129 |
+
|
| 130 |
+
If you notice any abnormalities or concerning patterns, highlight them clearly but avoid making definitive diagnoses.
|
| 131 |
+
|
| 132 |
+
Format your response like this:
|
| 133 |
+
<h3>ECG Report</h3>
|
| 134 |
+
<ul>
|
| 135 |
+
<li><strong>Date and Time:</strong> {timestamp}</li>
|
| 136 |
+
<li><strong>Heart Rate:</strong> [value] bpm</li>
|
| 137 |
+
<li><strong>PR Interval:</strong> [value] ms</li>
|
| 138 |
+
<!-- Other measurements -->
|
| 139 |
+
</ul>
|
| 140 |
+
|
| 141 |
+
<h3>Additional Observations</h3>
|
| 142 |
+
<ul>
|
| 143 |
+
<li>Observation 1</li>
|
| 144 |
+
<li>Observation 2</li>
|
| 145 |
+
</ul>
|
| 146 |
+
|
| 147 |
+
<h3>Conclusion</h3>
|
| 148 |
+
<p>[Your conclusion text]</p>
|
| 149 |
+
|
| 150 |
+
Important formatting instructions:
|
| 151 |
+
- Use HTML elements for structure (<ul>, <li>, <strong>, <h3>, etc.)
|
| 152 |
+
- Do not use asterisks (**) for emphasis - use proper HTML formatting instead
|
| 153 |
+
- For any urgent findings, use <span style="color:red"> to highlight them
|
| 154 |
+
"""
|
| 155 |
+
|
| 156 |
+
# Generate content using Gemini
|
| 157 |
+
response = gemini_client.models.generate_content(
|
| 158 |
model=vision_model,
|
| 159 |
+
contents=[vision_prompt,
|
| 160 |
+
types.Part.from_bytes(data=image_bytes, mime_type="image/jpeg")]
|
| 161 |
+
# Add safety_settings if needed:
|
| 162 |
+
# safety_settings=[
|
| 163 |
+
# {"category": "HARM_CATEGORY_HARASSMENT", "threshold": "BLOCK_NONE"},
|
| 164 |
+
# {"category": "HARM_CATEGORY_HATE_SPEECH", "threshold": "BLOCK_NONE"},
|
| 165 |
+
# {"category": "HARM_CATEGORY_SEXUALLY_EXPLICIT", "threshold": "BLOCK_NONE"},
|
| 166 |
+
# {"category": "HARM_CATEGORY_DANGEROUS_CONTENT", "threshold": "BLOCK_NONE"},
|
| 167 |
+
# ]
|
| 168 |
)
|
| 169 |
+
|
| 170 |
+
# Handle potential blocks or errors in response
|
| 171 |
+
if not response.candidates:
|
| 172 |
+
# Check finish_reason if available, e.g., safety settings block
|
| 173 |
+
finish_reason = getattr(response, 'prompt_feedback', None)
|
| 174 |
+
if finish_reason and getattr(finish_reason, 'block_reason', None):
|
| 175 |
+
return f"<strong style='color:red'>Analysis blocked due to: {finish_reason.block_reason}. Check safety settings or content.</strong>"
|
| 176 |
+
else:
|
| 177 |
+
return "<strong style='color:red'>No content generated by the model. The request might have been blocked or failed.</strong>"
|
| 178 |
+
|
| 179 |
+
|
| 180 |
+
# Assuming the first candidate has the content
|
| 181 |
+
ecg_analysis = response.text # Or response.candidates[0].content.parts[0].text
|
| 182 |
+
|
| 183 |
+
# --- End of Gemini Specific Part ---
|
| 184 |
+
|
| 185 |
# Process the response to convert any remaining ** to HTML tags
|
| 186 |
ecg_analysis = re.sub(r'\*\*([^*]+)\*\*', r'<strong>\1</strong>', ecg_analysis)
|
| 187 |
+
|
| 188 |
# Make sure all headers are properly formatted (with complete pattern)
|
| 189 |
ecg_analysis = re.sub(r'^(#+)\s+(.+)$', r'<h3>\2</h3>', ecg_analysis, flags=re.MULTILINE)
|
| 190 |
+
|
| 191 |
# If there's no HTML formatting at all, wrap in basic structure
|
| 192 |
if not re.search(r'<[^>]+>', ecg_analysis):
|
| 193 |
lines = ecg_analysis.split('\n')
|
| 194 |
formatted_html = "<h3>ECG Report</h3>\n<ul>\n"
|
| 195 |
+
|
| 196 |
for line in lines:
|
| 197 |
if line.strip():
|
| 198 |
# Try to identify key-value pairs
|
| 199 |
+
match = re.match(r'^([^:]+):\s*(.+)$', line.strip())
|
| 200 |
if match:
|
| 201 |
key, value = match.groups()
|
| 202 |
+
formatted_html += f" <li><strong>{key.strip()}:</strong> {value.strip()}</li>\n"
|
| 203 |
else:
|
| 204 |
+
formatted_html += f" <li>{line.strip()}</li>\n"
|
| 205 |
+
|
| 206 |
formatted_html += "</ul>"
|
| 207 |
ecg_analysis = formatted_html
|
| 208 |
+
|
| 209 |
return ecg_analysis
|
| 210 |
+
|
| 211 |
except Exception as e:
|
| 212 |
+
# Catch potential API errors or other issues
|
| 213 |
+
import traceback
|
| 214 |
+
print(traceback.format_exc()) # Print full traceback to console for debugging
|
| 215 |
+
return f"<strong style='color:red'>Error analyzing ECG image with Gemini:</strong> {str(e)}"
|
| 216 |
+
|
| 217 |
+
|
| 218 |
+
# Generate medical assessment based on ECG readings and patient history (Unchanged - uses Groq)
|
| 219 |
+
def generate_assessment(ecg_analysis, patient_history=None, chat_model="llama-3.1-70b-versatile"): # Adjusted default model slightly if needed
|
| 220 |
+
# Fixed model
|
| 221 |
+
chat_model = "llama-3.1-70b-versatile" # Or keep llama-3.3 if available/preferred
|
| 222 |
+
|
| 223 |
+
if not ecg_analysis or ecg_analysis.startswith("<strong style='color:red'>"):
|
| 224 |
return "<strong style='color:red'>Please analyze an ECG image first.</strong>"
|
| 225 |
+
|
| 226 |
# Get current timestamp
|
| 227 |
timestamp = datetime.datetime.now().strftime("%Y-%m-%d %H:%M:%S")
|
| 228 |
+
|
| 229 |
# Construct prompt based on available information
|
| 230 |
if patient_history and patient_history.strip():
|
| 231 |
prompt = f"""You are a highly trained cardiologist assistant. Based on the ECG analysis below and the patient's history, provide a comprehensive assessment of the patient's cardiac status. Indicate clearly if there are any concerning findings that require immediate medical attention.
|
|
|
|
| 330 |
- Do not use asterisks (**) for emphasis - use proper HTML formatting instead
|
| 331 |
- For any urgent findings, use <span style="color:red"> to highlight them
|
| 332 |
"""
|
| 333 |
+
|
| 334 |
try:
|
| 335 |
+
assessment_completion = groq_client.chat.completions.create(
|
| 336 |
messages=[
|
| 337 |
{
|
| 338 |
"role": "system",
|
|
|
|
| 344 |
}
|
| 345 |
],
|
| 346 |
model=chat_model,
|
| 347 |
+
temperature=0.2,
|
| 348 |
+
max_tokens=2048, # Note: Groq uses max_tokens
|
| 349 |
)
|
| 350 |
+
|
| 351 |
assessment_text = assessment_completion.choices[0].message.content
|
| 352 |
+
|
| 353 |
# Process the response to convert any remaining ** to HTML tags
|
| 354 |
assessment_text = re.sub(r'\*\*([^*]+)\*\*', r'<strong>\1</strong>', assessment_text)
|
| 355 |
+
|
| 356 |
# Make sure all headers are properly formatted (with complete pattern)
|
| 357 |
assessment_text = re.sub(r'^(#+)\s+(.+)$', r'<h3>\2</h3>', assessment_text, flags=re.MULTILINE)
|
| 358 |
+
|
| 359 |
+
# If there's no HTML formatting at all, wrap in basic structure (Improved fallback)
|
| 360 |
if not re.search(r'<[^>]+>', assessment_text):
|
| 361 |
sections = [
|
| 362 |
+
"Summary of Findings",
|
| 363 |
+
"Key Abnormalities",
|
| 364 |
+
"Potential Clinical Implications",
|
| 365 |
+
"Recommendation",
|
| 366 |
"Differential Considerations"
|
| 367 |
]
|
|
|
|
|
|
|
| 368 |
formatted_html = ""
|
|
|
|
|
|
|
|
|
|
| 369 |
lines = assessment_text.split('\n')
|
| 370 |
+
current_section_content = []
|
| 371 |
+
current_section_title = ""
|
| 372 |
+
|
| 373 |
+
def format_section(title, content_lines):
|
| 374 |
+
html = f"<h3>{title}</h3>\n<ul>\n"
|
| 375 |
+
for line in content_lines:
|
| 376 |
+
if line.strip():
|
| 377 |
+
html += f" <li>{line.strip()}</li>\n"
|
| 378 |
+
html += "</ul>\n"
|
| 379 |
+
return html
|
| 380 |
+
|
| 381 |
for line in lines:
|
| 382 |
+
line_stripped = line.strip()
|
| 383 |
+
if not line_stripped:
|
| 384 |
+
continue
|
| 385 |
+
|
| 386 |
+
is_header = False
|
| 387 |
+
for section_title in sections:
|
| 388 |
+
# Check if line looks like a header (case-insensitive)
|
| 389 |
+
if section_title.lower() in line_stripped.lower() and len(line_stripped) < len(section_title) + 10:
|
| 390 |
+
if current_section_title and current_section_content:
|
| 391 |
+
formatted_html += format_section(current_section_title, current_section_content)
|
| 392 |
+
current_section_title = section_title # Use the canonical title
|
| 393 |
+
current_section_content = []
|
| 394 |
+
is_header = True
|
| 395 |
+
break
|
| 396 |
+
|
| 397 |
+
if not is_header:
|
| 398 |
+
# If no section started yet, assume it's summary
|
| 399 |
+
if not current_section_title:
|
| 400 |
+
current_section_title = "Summary of Findings"
|
| 401 |
+
current_section_content.append(line_stripped)
|
| 402 |
+
|
| 403 |
+
# Add the last section
|
| 404 |
+
if current_section_title and current_section_content:
|
| 405 |
+
formatted_html += format_section(current_section_title, current_section_content)
|
| 406 |
+
|
| 407 |
+
assessment_text = formatted_html if formatted_html else f"<p>{assessment_text.replace('\n', '<br>')}</p>" # Basic wrap if structure fails
|
| 408 |
+
|
|
|
|
| 409 |
return assessment_text
|
| 410 |
+
|
| 411 |
except Exception as e:
|
| 412 |
+
import traceback
|
| 413 |
+
print(traceback.format_exc()) # Print full traceback
|
| 414 |
return f"<strong style='color:red'>Error generating assessment:</strong> {str(e)}"
|
| 415 |
|
| 416 |
+
|
| 417 |
+
# Doctor's chat interaction with the model about the patient (Unchanged - uses Groq)
|
| 418 |
+
def doctor_chat(message, chat_history, ecg_analysis, patient_history, assessment, chat_model="llama-3.1-70b-versatile"): # Adjusted default model slightly if needed
|
| 419 |
+
# Fixed model
|
| 420 |
+
chat_model = "llama-3.1-70b-versatile" # Or keep llama-3.3 if available/preferred
|
| 421 |
+
|
| 422 |
+
# Check if ECG analysis exists and is not an error message
|
| 423 |
+
if not ecg_analysis or ecg_analysis.startswith("<strong style='color:red'>"):
|
| 424 |
+
# Prepend error message to history instead of returning it directly
|
| 425 |
+
chat_history.append((message, "<strong style='color:red'>Cannot start chat. Please analyze a valid ECG image first.</strong>"))
|
| 426 |
+
return "", chat_history # Clear input, update history
|
| 427 |
+
|
| 428 |
if not message.strip():
|
| 429 |
+
return "", chat_history # Ignore empty messages
|
| 430 |
+
|
| 431 |
# Get current timestamp
|
| 432 |
timestamp = datetime.datetime.now().strftime("%Y-%m-%d %H:%M:%S")
|
| 433 |
+
|
| 434 |
# Prepare chat context
|
| 435 |
+
context = f"""CURRENT TIMESTAMP: {timestamp}
|
| 436 |
+
|
| 437 |
+
=== BEGIN CONTEXT ===
|
| 438 |
+
PATIENT HISTORY:
|
| 439 |
+
{patient_history if patient_history and patient_history.strip() else "No patient history provided."}
|
| 440 |
+
|
| 441 |
+
ECG ANALYSIS:
|
| 442 |
{ecg_analysis}
|
| 443 |
|
| 444 |
MEDICAL ASSESSMENT:
|
| 445 |
+
{assessment if assessment and not assessment.startswith("<strong style='color:red'>") else "No assessment generated yet or assessment failed."}
|
| 446 |
+
=== END CONTEXT ===
|
| 447 |
|
| 448 |
+
Based *only* on the context provided above, answer the doctor's questions concisely. If the information is not in the context, state that.
|
| 449 |
"""
|
| 450 |
+
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 451 |
# Construct full chat history for context
|
| 452 |
messages = [
|
| 453 |
{
|
| 454 |
"role": "system",
|
| 455 |
+
"content": f"You are a medical AI assistant specialized in cardiology, conversing with a doctor. Your knowledge is strictly limited to the patient information provided in the context below. Do not invent information or access external knowledge.\n\n{context}"
|
| 456 |
}
|
| 457 |
]
|
| 458 |
+
|
| 459 |
+
# Add chat history to the context (limited to last 5 exchanges to avoid token limits)
|
| 460 |
+
for user_msg, assistant_msg in chat_history[-5:]:
|
| 461 |
+
messages.append({"role": "user", "content": user_msg})
|
| 462 |
+
# Avoid adding error messages from assistant back into context
|
| 463 |
+
if not assistant_msg.startswith("<strong style='color:red'>"):
|
| 464 |
+
messages.append({"role": "assistant", "content": assistant_msg})
|
| 465 |
+
|
| 466 |
# Add the current message
|
| 467 |
messages.append({"role": "user", "content": message})
|
| 468 |
+
|
| 469 |
try:
|
| 470 |
+
chat_completion = groq_client.chat.completions.create(
|
| 471 |
messages=messages,
|
| 472 |
model=chat_model,
|
| 473 |
temperature=0.3,
|
| 474 |
+
max_tokens=1024, # Note: Groq uses max_tokens
|
| 475 |
)
|
| 476 |
+
|
| 477 |
response = chat_completion.choices[0].message.content
|
| 478 |
+
|
| 479 |
# Process any remaining asterisks to HTML tags in the response
|
| 480 |
response = re.sub(r'\*\*([^*]+)\*\*', r'<strong>\1</strong>', response)
|
| 481 |
+
|
| 482 |
chat_history.append((message, response))
|
| 483 |
+
return "", chat_history # Clear input message box
|
|
|
|
| 484 |
except Exception as e:
|
| 485 |
+
import traceback
|
| 486 |
+
print(traceback.format_exc()) # Print full traceback
|
| 487 |
error_message = f"<strong style='color:red'>Error in chat:</strong> {str(e)}"
|
| 488 |
chat_history.append((message, error_message))
|
| 489 |
+
return "", chat_history # Clear input message box
|
| 490 |
|
| 491 |
# Create Gradio interface
|
| 492 |
with gr.Blocks(title="Cardiac ECG Analysis System", theme=gr.themes.Soft()) as app:
|
| 493 |
+
# Session state to store data (Removed - use outputs directly or manage state differently if needed)
|
| 494 |
+
# ecg_analysis_state = gr.State("") # Not strictly necessary if passing outputs directly
|
| 495 |
+
|
| 496 |
gr.Markdown("# π« Cardiac ECG Analysis System")
|
| 497 |
gr.Markdown("Upload an ECG image and optional patient history to get an automated analysis and assessment.")
|
| 498 |
+
|
| 499 |
with gr.Tabs():
|
| 500 |
with gr.TabItem("π» Main Interface"):
|
| 501 |
with gr.Row():
|
| 502 |
with gr.Column(scale=1):
|
| 503 |
# Input components
|
| 504 |
+
with gr.Group():
|
| 505 |
gr.Markdown("### π ECG Image")
|
| 506 |
ecg_image = gr.Image(type="pil", label="Upload ECG Image")
|
| 507 |
+
# Display UPDATED fixed model info for vision
|
| 508 |
+
gr.Markdown("**Vision Model:** gemini-2.0-flash-exp")
|
| 509 |
analyze_button = gr.Button("Analyze ECG Image", variant="primary")
|
| 510 |
+
|
| 511 |
+
with gr.Group():
|
| 512 |
gr.Markdown("### π Patient Information")
|
| 513 |
patient_history_text = gr.Textbox(
|
| 514 |
+
lines=8,
|
| 515 |
+
label="Patient History (Manual Entry or Loaded from File)",
|
| 516 |
+
placeholder="Enter patient's medical history, age, sex, symptoms, medications, etc. OR upload a file below and click Load."
|
| 517 |
)
|
| 518 |
patient_history_file = gr.File(
|
| 519 |
label="Upload Patient History File (Optional, .txt, .csv, or .xlsx)",
|
| 520 |
file_types=[".txt", ".csv", ".xlsx", ".xls"]
|
| 521 |
)
|
| 522 |
load_history_button = gr.Button("Load Patient History from File")
|
| 523 |
+
|
| 524 |
+
with gr.Group():
|
| 525 |
gr.Markdown("### π§ Assessment Settings")
|
| 526 |
+
# Display fixed model info for chat/assessment
|
| 527 |
+
# Make sure this model name matches the one used in generate_assessment/doctor_chat
|
| 528 |
+
gr.Markdown("**Chat/Assessment Model:** llama-3.1-70b-versatile")
|
| 529 |
assess_button = gr.Button("Generate Assessment", variant="primary")
|
| 530 |
+
|
| 531 |
with gr.Column(scale=1):
|
| 532 |
# Output components
|
| 533 |
+
with gr.Group():
|
| 534 |
gr.Markdown("### π ECG Analysis Results")
|
| 535 |
ecg_analysis_output = gr.HTML(label="ECG Analysis", elem_id="ecg-analysis")
|
| 536 |
+
|
| 537 |
+
with gr.Group():
|
| 538 |
gr.Markdown("### π Medical Assessment")
|
| 539 |
assessment_output = gr.HTML(label="Assessment", elem_id="assessment-output")
|
| 540 |
+
|
| 541 |
gr.Markdown("## π¨ββοΈ Doctor's Consultation")
|
| 542 |
gr.Markdown("Ask follow-up questions about the patient's ECG results and medical condition.")
|
| 543 |
+
|
| 544 |
+
with gr.Group():
|
| 545 |
+
chatbot = gr.Chatbot(label="Consultation", height=400, bubble_full_width=False)
|
| 546 |
with gr.Row():
|
| 547 |
message = gr.Textbox(
|
| 548 |
+
lines=2,
|
| 549 |
label="Doctor's Question",
|
| 550 |
placeholder="Ask a question about this patient's cardiac status...",
|
| 551 |
+
scale=4,
|
| 552 |
+
show_label=False,
|
| 553 |
+
container=False, # Makes textbox slimmer vertically
|
| 554 |
)
|
| 555 |
chat_button = gr.Button("Send", scale=1, variant="primary")
|
| 556 |
+
|
| 557 |
with gr.TabItem("βΉοΈ Instructions"):
|
| 558 |
gr.Markdown("""
|
| 559 |
## How to Use This Application
|
| 560 |
+
|
| 561 |
### Step 1: Upload and Analyze ECG
|
| 562 |
+
1. Upload an ECG image using the file uploader in the "Main Interface" tab.
|
| 563 |
+
2. Click **Analyze ECG Image**. The system will use Gemini Vision to interpret the image.
|
| 564 |
+
3. Wait for the "ECG Analysis Results" to appear.
|
| 565 |
+
|
| 566 |
### Step 2: Add Patient Information (Optional)
|
| 567 |
+
* Enter patient history directly into the "Patient History" text box, OR
|
| 568 |
+
* Upload a patient history file (.txt, .csv, or .xlsx) and click **Load Patient History from File**. The content will populate the text box.
|
| 569 |
+
|
| 570 |
### Step 3: Generate Assessment
|
| 571 |
+
* Once the ECG analysis is complete, click **Generate Assessment**. The system will use a Llama model (via Groq) combining the ECG analysis and patient history (if provided).
|
| 572 |
+
* Wait for the "Medical Assessment" to appear.
|
| 573 |
+
|
| 574 |
### Step 4: Consultation
|
| 575 |
+
* Use the chat interface at the bottom to ask follow-up questions.
|
| 576 |
+
* Type your question and click **Send** or press Enter.
|
| 577 |
+
* The AI (Llama via Groq) will consider the ECG analysis, patient history, and the generated assessment in its responses.
|
| 578 |
+
|
| 579 |
### Important Notes
|
| 580 |
+
* **API Keys:** Ensure `GEMINI_API_KEY` and `GROQ_API_KEY` environment variables are set correctly before running the application.
|
| 581 |
+
* **Purpose:** This tool is designed to assist healthcare professionals and is NOT a substitute for professional clinical judgment or diagnosis.
|
| 582 |
+
* **Validation:** Always validate AI-generated medical interpretations with qualified medical expertise.
|
| 583 |
+
* **Privacy:** Ensure compliance with patient data privacy regulations (e.g., HIPAA) when using this tool. Do not upload identifiable patient information if not permitted.
|
| 584 |
""")
|
| 585 |
+
|
| 586 |
+
# --- Event Handlers ---
|
| 587 |
+
|
| 588 |
+
# Chain analysis button click to update output
|
| 589 |
analyze_button.click(
|
| 590 |
+
analyze_ecg_image,
|
| 591 |
+
inputs=[ecg_image],
|
| 592 |
outputs=ecg_analysis_output
|
|
|
|
|
|
|
|
|
|
|
|
|
| 593 |
)
|
| 594 |
+
|
| 595 |
+
# Load history file content into the textbox
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 596 |
load_history_button.click(
|
| 597 |
+
process_patient_history,
|
| 598 |
inputs=[patient_history_file],
|
| 599 |
outputs=[patient_history_text]
|
| 600 |
)
|
| 601 |
+
|
| 602 |
+
# Generate assessment based on ECG output and history textbox
|
| 603 |
assess_button.click(
|
| 604 |
+
generate_assessment,
|
| 605 |
+
inputs=[ecg_analysis_output, patient_history_text],
|
| 606 |
outputs=assessment_output
|
| 607 |
)
|
| 608 |
+
|
| 609 |
+
# Handle chat interactions
|
| 610 |
chat_button.click(
|
| 611 |
+
doctor_chat,
|
| 612 |
+
inputs=[message, chatbot, ecg_analysis_output, patient_history_text, assessment_output],
|
| 613 |
+
outputs=[message, chatbot] # Clear message input, update chatbot history
|
| 614 |
)
|
| 615 |
+
|
| 616 |
+
# Also trigger chat on Enter key press in the message textbox
|
| 617 |
message.submit(
|
| 618 |
doctor_chat,
|
| 619 |
inputs=[message, chatbot, ecg_analysis_output, patient_history_text, assessment_output],
|
| 620 |
+
outputs=[message, chatbot] # Clear message input, update chatbot history
|
| 621 |
)
|
| 622 |
|
| 623 |
+
|
| 624 |
# Launch the app
|
| 625 |
if __name__ == "__main__":
|
| 626 |
+
# For development, you might want debug=True
|
| 627 |
+
# app.launch(debug=True)
|
| 628 |
app.launch()
|