app.py

import streamlit as st

# pip install streamlit fhir.resources==6.5.0 fhirclient smart.models sdcclient
# FHIR resources functions
from datetime import datetime
from fhir.resources.activitydefinition import ActivityDefinition
from fhir.resources.medicationrequest import MedicationRequest
from fhir.resources.observation import Observation
from fhir.resources.diagnosticreport import DiagnosticReport
from fhir.resources.questionnaireresponse import QuestionnaireResponse
from fhir.resources.careplan import CarePlan
from fhir.resources.goal import Goal
from fhir.resources.condition import Condition
from fhir.resources.patient import Patient
#from fhir.resources.patient import HumanName
from fhir.resources.humanname import HumanName
from fhir.resources.procedure import Procedure
from fhir.resources.encounter import Encounter
from fhir.resources.organization import Organization
from fhir.resources.practitioner import Practitioner
from fhir.resources.practitionerrole import PractitionerRole
from fhir.resources.healthcareservice import HealthcareService
from fhir.resources.location import Location
from fhir.resources.immunization import Immunization
from fhir.resources.documentreference import DocumentReference
from fhir.resources.medicationdispense import MedicationDispense
from fhir.resources.medicationstatement import MedicationStatement
from fhir.resources.appointment import Appointment
from fhir.resources.schedule import Schedule
from fhir.resources.slot import Slot
from fhir.resources.patient import Patient
from fhir.resources.questionnaire import Questionnaire
from fhir.resources.activitydefinition import ActivityDefinition
from fhir.resources.measure import Measure
from fhir.resources.plandefinition import PlanDefinition
from fhir.resources.careteam import CareTeam
from fhir.resources.person import Person
from fhir.resources.group import Group
from fhir.resources.practitioner import Practitioner
from fhir.resources.practitionerrole import PractitionerRole
from fhir.resources.healthcareservice import HealthcareService
from fhir.resources.location import Location
from fhir.resources.immunization import Immunization
from fhir.resources.documentreference import DocumentReference
from fhir.resources.medicationdispense import MedicationDispense
from fhir.resources.medicationstatement import MedicationStatement
from fhir.resources.appointment import Appointment
from fhir.resources.schedule import Schedule
from fhir.resources.slot import Slot
from fhir.resources.servicerequest import ServiceRequest
from fhir.resources.communicationrequest import CommunicationRequest
from fhir.resources.annotation import Annotation


import json
from typing import List, Tuple

#import smart.models as smart
#from sdcclient import SdcClient

# Initialize the SMART client
# smart_client = smart.client

# Initialize the SDC client
#sdc_client = SdcClient()

# Define a list of example patients
EXAMPLE_PATIENTS = [
    {
        "name": "Alice Smith",
        "birthdate": "1980-01-01",
        "gender": "female",
        "address": {
            "line": ["123 Main St"],
            "city": "Anytown",
            "state": "NY",
            "postalCode": "12345",
            "country": "US"
        },
        "phone": "555-555-1212"
    },
    {
        "name": "Bob Johnson",
        "birthdate": "1975-05-05",
        "gender": "male",
        "address": {
            "line": ["456 Oak St"],
            "city": "Anytown",
            "state": "NY",
            "postalCode": "12345",
            "country": "US"
        },
        "phone": "555-555-1212"
    }
]

# Define a list of example social determinants of health
EXAMPLE_SDH = [
    {
        "question": "Do you have reliable transportation?",
        "answer": "Yes"
    },
    {
        "question": "Do you have enough food to eat?",
        "answer": "No"
    },
    {
        "question": "Do you have stable housing?",
        "answer": "No"
    }
]

def get_patient(name: str) -> Tuple[Patient, str]:
    """
    Returns a tuple containing the FHIR Patient resource and the SMART Patient model
    for the given patient name.
    """
    # Get the example patient with the matching name
    example_patient = next((p for p in EXAMPLE_PATIENTS if p["name"] == name), None)
    if not example_patient:
        raise ValueError(f"No example patient found with name '{name}'")

    # Create a FHIR Patient resource
    patient = Patient()
    patient.name = [HumanName()]
    patient.name[0].given = [example_patient["name"].split()[0]]
#    patient.name[0].family = [example_patient["name"].split()[0]]
    
#    patient.birthDate = FHIRDate(example_patient["birthdate"])
    patient.gender = example_patient["gender"]
    #patient.address = [Address()]
    #patient.address.append(Address())

    #patient.address[0].line = example_patient["address"]["line"]
    #patient.address[0].city = example_patient["address"]["city"]
    #patient.address[0].state = example_patient["address"]["state"]
    #patient.address[0].postalCode = example_patient["address"]["postalCode"]
    #patient.address[0].country = example_patient["address"]["country"]
    #patient.telecom = [ContactPoint()]
    #patient.telecom[0].system = "phone"
    #patient.telecom[0].value = example_patient["phone"]

    # Create a SMART Patient model
    smart_patient = smart.Patient.read_from(patient.as_json())

    return patient, smart_patient

def create_observation(patient_id: str, code: str, value: str, unit: str) -> Observation:
    """
    Creates and returns a FHIR Observation resource with the given patient ID, code, value, and unit.
    """
    observation = Observation()
    observation.subject = {"reference": f"Patient/{patient_id}"}
    observation.code = CodeableConcept()
    observation.code.coding = [Coding()]
    observation.code.coding[0].system = "http://loinc.org"
    observation.code.coding[0].code = code
    observation.valueQuantity = Quantity()
    observation.valueQuantity.value = float(value)
    observation.valueQuantity.unit = unit
    observation.status = "final"
    observation.effectiveDateTime = FHIRDate("2023-02-21")
    observation.meta = Meta()
    observation.meta.profile = ["http://hl7.org/fhir/StructureDefinition/vitalsigns"]

    return observation

def create_assessment(patient_id: str, code: str, value: str) -> DiagnosticReport:
    """
    Creates and returns a FHIR DiagnosticReport resource with the given patient ID, code, and value.
    """
    report = DiagnosticReport()
    report.status = "final"
    report.subject = {"reference": f"Patient/{patient_id}"}
    report.code = CodeableConcept()
    report.code.coding = [Coding()]
    report.code.coding[0].system = "http://loinc.org"
    report.code.coding[0].code = code
    report.result = [Reference()]
    report.result[0].reference = f"Observation/{code}"
    report.result[0].display = value
    report.effectiveDateTime = FHIRDate("2023-02-21")

    return report


def create_provider(name: str, organization_name: str) -> Tuple[Practitioner, PractitionerRole, Organization]:
    """
    Creates and returns a tuple containing the FHIR Practitioner, PractitionerRole, and Organization resources for the given provider name and organization name.
    """
    # Create a FHIR Practitioner resource
    practitioner = Practitioner()
    practitioner.name = [HumanName()]
    practitioner.name[0].text = name
    practitioner.identifier = [Identifier()]
    practitioner.identifier[0].system = "http://example.com/providers"
    practitioner.identifier[0].value = "12345"

    # Create a FHIR PractitionerRole resource
    practitioner_role = PractitionerRole()
    practitioner_role.practitioner = {"reference": f"Practitioner/{practitioner.id}"}
    practitioner_role.organization = {"reference": f"Organization/{organization_name}"}
    practitioner_role.code = [CodeableConcept()]
    practitioner_role.code[0].coding = [Coding()]
    practitioner_role.code[0].coding[0].system = "http://nucc.org/provider-taxonomy"
    practitioner_role.code[0].coding[0].code = "207Q00000X"
    practitioner_role.code[0].coding[0].display = "Family Medicine"
    practitioner_role.specialization = [CodeableConcept()]
    practitioner_role.specialization[0].coding = [Coding()]
    practitioner_role.specialization[0].coding[0].system = "http://snomed.info/sct"
    practitioner_role.specialization[0].coding[0].code = "123456"
    practitioner_role.specialization[0].coding[0].display = "Example Specialty"

    # Create a FHIR Organization resource
    organization = Organization()
    organization.name = organization_name

    return practitioner, practitioner_role, organization


def create_fulfillment(patient_id: str, medication_name: str, quantity: int, dispense_date: str) -> MedicationStatement:
    """
    Creates and returns a FHIR MedicationStatement resource representing a fulfillment of a prescription for the given patient ID, medication name, quantity, and dispense date.
    """
    # Create a FHIR Medication resource
    medication = Medication()
    medication.code = CodeableConcept()
    medication.code.text = medication_name

    # Create a FHIR MedicationStatement resource
    fulfillment = MedicationStatement()
    fulfillment.status = "completed"
    fulfillment.medicationReference = {"reference": f"Medication/{medication.id}"}
    fulfillment.subject = {"reference": f"Patient/{patient_id}"}
    fulfillment.dosage = [Dosage()]
    fulfillment.dosage[0].route = CodeableConcept()
    fulfillment.dosage[0].route.coding = [Coding()]
    fulfillment.dosage[0].route.coding[0].system = "http://example.com/routes"
    fulfillment.dosage[0].route.coding[0].code = "123456"
    fulfillment.dosage[0].route.coding[0].display = "Example Route"
    fulfillment.dosage[0].quantity = Quantity()
    fulfillment.dosage[0].quantity.value = quantity
    fulfillment.dosage[0].quantity.unit = "pill"
    fulfillment.effectiveDateTime = FHIRDate(dispense_date)

    return fulfillment


def create_note(patient_id: str, text: str) -> DocumentReference:
    """
    Creates and returns a FHIR DocumentReference resource representing a note for the given patient ID and text.
    """
    note = DocumentReference()
    note.status = "current"
    note.subject = {"reference": f"Patient/{patient_id}"}
    note.type = CodeableConcept()
    note.type.coding = [Coding()]
    note.type.coding[0].system = "http://loinc.org"
    note.type.coding[0].code = "11506-3"
    note.type.coding[0].display = "Consult note"
    note.content = [Attachment()]
    note.content[0].contentType = "text/plain"
    note.content[0].data = text.encode("utf-8")
    note.author = [Reference()]
    note.author[0].reference = f"Practitioner/example-provider"
    note.date = FHIRDate("2023-02-21")

    return note

def create_social_determinant(question: str, answer: str) -> QuestionnaireResponse:
    """
    Creates and returns a FHIR QuestionnaireResponse resource representing a social determinant of health with the given question and answer.
    """
    response = SmartQuestionnaireResponse()
    response.questionnaire = "http://example.com/sdh-questionnaire"
    response.item = []
    item = QuestionnaireResponseItem()
    item.linkId = "1"
    item.text = question
    item.answer = []
    answer_item = QuestionnaireResponseItemAnswer()
    answer_item.valueString = answer
    item.answer.append(answer_item)
    response.item.append(item)

    return response

def create_care_team(name: str, provider_names: List[str]) -> CareTeam:
    """
    Creates and returns a FHIR CareTeam resource representing a care team with the given name and provider names.
    """
    care_team = SmartCareTeam()
    care_team.status = "active"
    care_team.name = name
    care_team.participant = []
    for provider_name in provider_names:
        provider_ref = f"Practitioner/{provider_name}"
        care_team.participant.append(CareTeamParticipant({"member": {"reference": provider_ref}}))

    return care_team

def create_activity_definition(title: str, description: str, category: str, code: str) -> ActivityDefinition:
    """
    Creates and returns a FHIR ActivityDefinition resource representing an activity definition with the given title, description, category, and code.
    """
    activity_definition = SmartActivityDefinition()
    activity_definition.status = "draft"
    activity_definition.kind = "procedure"
    activity_definition.title = title
    activity_definition.description = description
    activity_definition.category = CodeableConcept({"coding": [Coding({"system": "http://example.com/categories", "code": category, "display": f"Example {category}"})]})
    activity_definition.code = CodeableConcept({"coding": [Coding({"system": "http://example.com/codes", "code": code, "display": f"Example {code}"})]})

    return activity_definition

# Streamlit app code
import streamlit as st
from fhir.resources import *

st.set_page_config(page_title="FHIR Demo", page_icon=":heart:", layout="wide")

st.title("FHIR Demo")

st.sidebar.title("Navigation")
navigation = st.sidebar.radio("Go to", ("Home", "Observations", "Assessments", "Rules", "Referrals", "Providers", "Programs", "Fulfillment", "Alerts", "Notes", "Social Determinants of Health"))

st.sidebar.title("SMART App")
smart = None
if st.sidebar.button("Launch SMART App"):
    smart = SmartApp.launch()
    st.sidebar.write("SMART App launched")
if st.sidebar.button("Close SMART App"):
    if smart:
        smart.close()
        st.sidebar.write("SMART App closed")
    else:
        st.sidebar.write("No SMART App to close")

if navigation == "Home":
    st.write("Welcome to the FHIR Demo!")
    st.write("Use the sidebar to navigate to different FHIR resources.")
    st.write("Use the SMART App buttons in the sidebar to launch and close the app.")

elif navigation == "Observations":
    st.write("# Observations")
    patient_name = st.selectbox("Select patient", [p["name"] for p in EXAMPLE_PATIENTS])
    patient, smart_patient = get_patient(patient_name)
    st.write("### Patient")
    st.write(f"Name: {patient.name[0].given[0]} {patient.name[0].family[0]}")
    st.write(f"Birthdate: {patient.birthDate.as_json()}")
    st.write(f"Gender: {patient.gender}")
    st.write(f"Address: {patient.address[0].line[0]}, {patient.address[0].city}, {patient.address[0].state} {patient.address[0].postalCode}, {patient.address[0].country}")
    st.write(f"Phone: {patient.telecom[0].value}")
    st.write("### Add Observation")
    code = st.selectbox("Select code", ["8302-2", "8462-4", "8867-4", "9279-1"])
    value = st.number_input("Value")
    unit = st.selectbox("Select unit", ["bpm", "mmHg", "mg/dL", "kg"])
    observation = create_observation(patient.id, code, value, unit)
    smart_client = smart.patient(smart_patient)
    response = smart_client.create(observation)
    st.write("Observation created:")
    st.write(response.as_json())

elif navigation == "Assessments":
    st.write("# Assessments")
    patient_name = st.selectbox("Select patient", [p["name"] for p in EXAMPLE_PATIENTS])
    patient, smart_patient = get_patient(patient_name)
    st.write("### Patient")
    st.write(f"Name: {patient.name[0].given[0]} {patient.name[0].family[0]}")
    st.write(f"Birthdate: {patient.birthDate.as_json()}")
    st.write(f"Gender: {patient.gender}")
    st.write(f"Address: {patient.address[0].line[0]}, {patient.address[0].city}, {patient.address[0].state} {patient.address[0].postalCode}, {patient.address[0].country}")
    st.write(f"Phone: {patient.telecom[0].value}")
    st.write("### Add Assessment")
    code = st.selectbox("Select code", ["69646-2", "8150-9", "82810-3"])
    value = st.selectbox("Select value", ["Absent", "Mild", "Moderate", "Severe"])
    assessment = create_assessment(patient.id, code, value)
    smart_client = smart.patient(smart_patient)
    response = smart_client.create(assessment)
    st.write("Assessment created:")
    st.write(response.as_json())

elif navigation == "Rules":
    st.write("# Rules")
    st.write("### Add Rule")
    code = st.selectbox("Select code", ["36405-2", "89053-6"])
    description = st.text_input("Description")
    rule = create_rule(code, description)
    response = smart.server.create(rule)
    st.write("Rule created:")
    st.write(response.as_json())

elif navigation == "Referrals":
    st.write("# Referrals")
    patient_name = st.selectbox("Select patient", [p["name"] for p in EXAMPLE_PATIENTS])
    patient, smart_patient = get_patient(patient_name)
    st.write("### Patient")
    st.write(f"Name: {patient.name[0].given[0]} {patient.name[0].family[0]}")
    st.write(f"Birthdate: {patient.birthDate.as_json()}")
    st.write(f"Gender: {patient.gender}")
    st.write(f"Address: {patient.address[0].line[0]}, {patient.address[0].city}, {patient.address[0].state} {patient.address[0].postalCode}, {patient.address[0].country}")
    st.write(f"Phone: {patient.telecom[0].value}")
    st.write("### Add Referral")
    reason = st.text_input("Reason")
    specialty = st.text_input("Specialty")
    provider_name = st.selectbox("Select provider", [p["name"] for p in EXAMPLE_PROVIDERS])
    provider, practitioner_role, organization = create_provider(provider_name, "Example Healthcare")
    response1 = smart.server.create(provider)
    response2 = smart.server.create(practitioner_role)
    response3 = smart.server.create(organization)
    referral = create_referral_request(patient.id, reason, specialty, provider_name)
    response4 = smart.server.create(referral)
    st.write("Referral created:")
    st.write(response4.as_json())

elif navigation == "Providers":
    st.write("# Providers")
    st.write("### Add Provider")
    name = st.text_input("Name")
    organization_name = st.text_input("Organization")
    provider, practitioner_role, organization = create_provider(name, organization_name)
    response1 = smart.server.create(provider)
    response2 = smart.server.create(practitioner_role)
    response3 = smart.server.create(organization)
    st.write("Provider created:")
    st.write(response1.as_json())

elif navigation == "Programs":
    st.write("# Programs")
    st.write("### Add Program")
    name = st.text_input("Name")
    goal_description = st.text_input("Goal description")
    start_date = st.date_input("Start date")
    end_date = st.date_input("End date")
    program = create_program(name, goal_description, start_date.isoformat(), end_date.isoformat())
    response = smart.server.create(program)
    st.write("Program created:")
    st.write(response.as_json())

elif navigation == "Fulfillment":
    st.write("# Fulfillment")
    patient_name = st.selectbox("Select patient", [p["name"] for p in EXAMPLE_PATIENTS])
    patient, smart_patient = get_patient(patient_name)
    st.write("### Patient")
    st.write(f"Name: {patient.name[0].given[0]} {patient.name[0].family[0]}")
    st.write(f"Birthdate: {patient.birthDate.as_json()}")
    st.write(f"Gender: {patient.gender}")
    st.write(f"Address: {patient.address[0].line[0]}, {patient.address[0].city}, {patient.address[0].state} {patient.address[0].postalCode}, {patient.address[0].country}")
    st.write(f"Phone: {patient.telecom[0].value}")
    st.write("### Add Fulfillment")
    medication_name = st.selectbox("Select medication", ["Aspirin", "Lisinopril", "Metformin"])
    quantity = st.number_input("Quantity")
    dispense_date = st.date_input("Dispense date")
    fulfillment = create_fulfillment(patient.id, medication_name, quantity, dispense_date.isoformat())
    smart_client = smart.patient(smart_patient)
    response = smart_client.create(fulfillment)
    st.write("Fulfillment created:")
    st.write(response.as_json())

st.markdown("""


| Library | Description | PyPI URL |
|---------|-------------|----------|
| FHIR-Resources | 🩺 A Python library for working with FHIR resources. It provides classes and methods for creating, manipulating, and serializing FHIR resources. | https://pypi.org/project/fhir-resources/ |
| SMART on FHIR Python Client | 🔒 A Python library for accessing SMART on FHIR servers. It provides classes and methods for authenticating with SMART servers and accessing FHIR resources. | https://pypi.org/project/smart-on-fhir/ |
| PyFHIR | 📦 A Python library for parsing and generating FHIR resources. It provides classes for representing FHIR resources and methods for serializing and deserializing them. | https://pypi.org/project/pyfhir/ |
| HAPI FHIR | 💻 A Python library for working with FHIR servers. It provides classes and methods for querying FHIR servers and working with FHIR resources. | https://pypi.org/project/hapi-fhir/ |
| FHIR-Parser | 📄 A Python library for parsing FHIR resources. It provides a parser class for deserializing FHIR resources. | https://pypi.org/project/fhir-parser/ |
| FHIR-FLAT | 🧐 A Python library for working with FHIR resources. It provides classes for representing FHIR resources and methods for serializing and deserializing them. | https://pypi.org/project/fhir-flat/ |
| HL7apy | 📩 A Python library for working with HL7 messages. It provides classes and methods for parsing and generating HL7 messages. | https://pypi.org/project/hl7apy/ |
| pyHl7 | 📨 A Python library for parsing and generating HL7 messages. It provides classes for representing HL7 messages and methods for serializing and deserializing them. | https://pypi.org/project/pyhl7/ |
| FHIR-Utils | 🔧 A Python library for working with FHIR resources. It provides utility functions for common FHIR tasks. | https://pypi.org/project/fhir-utils/ |

""")

import streamlit as st

# Angular libraries
st.header("Angular Libraries")
st.write("Here are some popular Angular libraries:")

st.markdown("- [ngx-charts](https://www.npmjs.com/package/@swimlane/ngx-charts)")
st.markdown("- [angular-material](https://material.angular.io/)")

# Node.JS libraries
st.header("Node.JS Libraries")
st.write("Here are some popular Node.JS libraries:")

st.markdown("- [express](https://expressjs.com/)")
st.markdown("- [axios](https://www.npmjs.com/package/axios)")

# Docker libraries
st.header("Docker Libraries")
st.write("Here are some popular Docker libraries:")

st.markdown("- [docker-py](https://pypi.org/project/docker/)")
st.markdown("- [docker-compose](https://docs.docker.com/compose/)")

# Kubernetes libraries
st.header("Kubernetes Libraries")
st.write("Here are some popular Kubernetes libraries:")

st.markdown("- [kubernetes](https://pypi.org/project/kubernetes/)")
st.markdown("- [kubeflow](https://www.kubeflow.org/)")

# GraphQL libraries
st.header("GraphQL Libraries")
st.write("Here are some popular GraphQL libraries:")

st.markdown("- [graphene](https://pypi.org/project/graphene/)")
st.markdown("- [graphql-core](https://pypi.org/project/graphql-core/)")

# PostgreSQL libraries
st.header("PostgreSQL Libraries")
st.write("Here are some popular PostgreSQL libraries:")

st.markdown("- [psycopg2](https://pypi.org/project/psycopg2/)")
st.markdown("- [sqlalchemy](https://pypi.org/project/SQLAlchemy/)")

# Snowflake libraries
st.header("Snowflake Libraries")
st.write("Here are some popular Snowflake libraries:")

st.markdown("- [snowflake-connector-python](https://pypi.org/project/snowflake-connector-python/)")
st.markdown("- [snowflake-sqlalchemy](https://pypi.org/project/snowflake-sqlalchemy/)")

# AI libraries
st.header("AI Libraries")
st.write("Here are some popular AI libraries:")

st.markdown("- [tensorflow](https://pypi.org/project/tensorflow/)")
st.markdown("- [scikit-learn](https://pypi.org/project/scikit-learn/)")