app.py

from functions import *

# set the title
st.sidebar.title(DASHBOARD_TITLE)

# add an explanation of what is NER and why it is important for medical tasks
st.sidebar.markdown(
    """
    Named Entity Recognition (NER) is a subtask of information extraction that locates and classifies named entities mentioned in unstructured text into pre-defined categories such as the names of persons, organizations, locations, expressions of times, quantities, monetary values, percentages, etc. 

    In the medical domain, NER can be used to extract entities such as symptoms, diseases, treatments, and more. This can be useful for various tasks such as clinical decision support, medical coding, and more.
    """
)

# load the model
with st.spinner("Loading the model..."):
    model = load_pipeline()

# input
st.info("Enter the text in the text area below and click on submit to extract the entities")
text = st.text_area(value="Woman, 43, feeling pain in the stomach. No vomiting", label="Enter the text here")
submit = st.button("Submit")

if text and submit:

    # get the entities
    entities =  model(text)

    if len(entities) == 0:
        st.error("No entities found")

    # annotate the entities
    annotated_entities = [annotate(entity) for entity in entities]

    # display the entities
    st.header("Found Entities")
    for an_entity in annotated_entities:
        annotated_text(an_entity)