commit all

Dockerfile

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+FROM python:3.9
+
+WORKDIR /code
+
+COPY ./requirements.txt /code/requirements.txt
+
+RUN pip install --no-cache-dir --upgrade -r /code/requirements.txt
+
+COPY . .
+
+CMD ["uvicorn", "app.main:app", "--host", "0.0.0.0", "--port", "7860"]

app.py

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+from fastapi import FastAPI # Import the FastAPI framework for building APIs
+from typing import List, Literal # Import typing hints for function annotations
+from pydantic import BaseModel # Import BaseModel for creating data models
+import uvicorn # Import uvicorn for running the FastAPI app
+import pandas as pd # Import pandas library for data manipulation
+import pickle, os # Import pickle and os modules for handling files and data serialization
+
+# Define a function to load machine learning components
+def load_ml_components(fp):
+    '''Load machine learning to re-use in app '''
+    with open(fp, 'rb') as f:
+        object = pickle.load(f) # Load a pickled object (machine learning model)
+    return object # Return the loaded object
+
+# Define a Pydantic model for the input data
+class Sepsis(BaseModel):
+    """
+    Represents the input data for the model prediction.
+
+    Attributes:
+        PlasmaGlucose (int): The plasma glucose level of the individual.
+        BloodWorkResult_1 (int): The result of blood work test 1.
+        BloodPressure (int): The blood pressure reading of the individual.
+        BloodWorkResult_2 (int): The result of blood work test 2.
+        BloodWorkResult_3 (int): The result of blood work test 3.
+        BodyMassIndex (float): The body mass index of the individual.
+        BloodWorkResult_4 (float): The result of blood work test 4.
+        Age (int): The age of the individual.
+
+        'sepsis' is the target feature which holds 0 = Negative and 1 = Positive.
+    """
+    # Define the input features as class attributes
+
+    PlasmaGlucose : int
+    BloodWorkResult_1 : int
+    BloodPressure : int
+    BloodWorkResult_2 : int
+    BloodWorkResult_3 : int
+    BodyMassIndex : float
+    BloodWorkResult_4 : float
+    Age : int
+
+# Setup
+"""
+Get the absolute path of the current model file.
+then extracts the directory path from the absolute path of the model file.
+This is useful when we need to locate the file 
+relative to our script's location.
+"""
+# Get the absolute path of the current directory
+DIRPATH = os.path.dirname(os.path.realpath(__file__))
+
+# Join the directory path with the model file name
+ml_core_fp = os.path.join(DIRPATH, 'gradient_boosting_model.pkl')
+
+# Define the labels manually
+labels = ['Negative', 'Positive']
+
+# Load the machine learning components
+end2end_pipeline = load_ml_components(fp=ml_core_fp) # Load the machine learning model from the file
+
+# Access the model step of the pipeline
+model = end2end_pipeline.named_steps['model'] # Access the model component from the pipeline
+
+# Create a dictionary to map index to labels
+idx_to_labels = {i: l for (i, l) in enumerate(labels)}
+
+# Print predictable labels and index-to-label mapping
+print(f'\n[Info]Predictable labels: {labels}')
+print(f'\n[Info]Indices to labels: {idx_to_labels}')
+
+# Print information about the loaded model
+print(f'\n[Info]ML components loaded - Model: {model}')
+
+# Create the FastAPI application instance
+app = FastAPI(title='Sepsis Prediction API') # Create a FastAPI instance with a title
+
+# Define a route to handle the root endpoint
+@app.get('/') 
+def root():
+    return{
+        "info" : "Sepsis Prediction API: This interface is about the prediction of sepsis disease of patients in ICU."
+    }
+    
+
+# Define a route to handle the prediction
+@app.post('/classify')
+def sepsis_classification(PlasmaGlucose : int,
+    BloodWorkResult_1 : int,
+    BloodPressure : int,
+    BloodWorkResult_2 : int,
+    BloodWorkResult_3 : int,
+    BodyMassIndex : float,
+    BloodWorkResult_4 : float,
+    Age : int):
+    # Define checkmarks for printing symbols
+    red_x = u"\u274C"
+    green_checkmark = "\033[32m" + u"\u2713" + "\033[0m" #u"\u2713"
+
+    try:
+         # # Create a dataframe from the input data, to solve the indexing issue, wrapp dict in a list
+         df = pd.DataFrame(
+            [ {
+                'PlasmaGlucose': PlasmaGlucose,  
+                'BloodWorkResult_1(U/ml)': BloodWorkResult_1,  
+                'BloodPressure(mm Hg)': BloodPressure,  
+                'BloodWorkResult_2(mm)': BloodWorkResult_2,  
+                'BloodWorkResult_3(U/ml)': BloodWorkResult_3,  
+                'BodyMassIndex(kg/m)^2': BodyMassIndex,  
+                'BloodWorkResult_4(U/ml)':BloodWorkResult_4,  
+                'Age (years)':Age}  ]
+         )
+         # Print input data as a dataframe
+         print(f'[Info]Input data as dataframe:\n{df.to_markdown()}')
+
+         # Predict using the loaded model
+         output = model.predict(df)
+         confidence_scores = model.predict_proba(df)  # Predict the probabilities for each class
+         print(f'Considering the best confidence score, the output is: {output}')
+         print(f'Confidence scores: {confidence_scores}')
+
+         # Get index of predicted class
+         predicted_idx = output
+
+         # Store index then replace by the matching label
+         df['Predicted label'] = predicted_idx
+         predicted_label = df['Predicted label'].replace(idx_to_labels)
+         df['Predicted label'] = predicted_label
+
+         # Map predicted indices to labels
+         predicted_labels = [idx_to_labels[idx] for idx in output]
+
+         # Store the predicted probabilities for each class in the dataframe
+         for i, label in enumerate(labels):
+             df[f'Confidence_{label}'] = confidence_scores[:, i] * 100  # Convert to percentage
+
+             # Print the result with confidence scores as percentages
+             if predicted_labels:
+                  i = 0  
+                  label = predicted_labels[0]  # Get the first predicted label
+                  confidence_score_percentage = max(confidence_scores[i]) * 100
+                  print(f"{green_checkmark} This patient in ICU has been classified as Sepsis {label} with confidence of: {confidence_score_percentage:.1f}%")
+
+         msg = "Execution went fine"
+         code = 1
+         pred = df.to_dict("records") 
+         
+
+    except Exception as e:
+        print(f"\033[91m{red_x} An exception occurred: {str(e)}")
+        msg = "Execution did not go well"
+        code = 0
+        pred = None
+        
+    # Create the API response
+    result = {"Execution_msg": msg, "execution_code": code, "prediction": pred}
+    return result
+
+# Run the FastAPI application using uvicorn
+if __name__ == "__main__":
+    uvicorn.run("main:app", host = "0.0.0.0", port = 8000, reload = True)

requirements.txt

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+pytest
+scikit-learn
+fastapi[all]
+pydantic
+uvicorn
+pypi-json
+requests
+pandas
+tabulate