Add many command origination effects.

[aduane]

https://canvasmedical.atlassian.net/browse/KOALA-1632

With this PR, I was able to originate the following commands:

• AssessCommand
• DiagnoseCommand
  • Issue with specifying the onset date
• GoalCommand
• HistoryOfPresentIllnessCommand
• MedicationStatementCommand
• PlanCommand
• PrescribeCommand
  • Issue with specifying the indications and dosage form
• QuestionnaireCommand
• ReasonForVisitCommand
• StopMedicationCommand
• UpdateGoalCommand

This won't have an effect until we write the interpreters, however.

[aduane]

I changed ADD to ORIGINATE.

[aduane]

I changed these from self.Meta.key.upper() to a call to the new method constantized_key to account for multi-word command types. Instead of EDIT_MEDICATIONSTATEMENT_COMMAND we want the more readable EDIT_MEDICATION_STATEMENT_COMMAND.

[aduane]

We should run the pydantic validators when these effect methods are called rather than on assignment. This should allow us to set the attributes individually instead of only in the constructor.
Example:

plan = PlanCommand()
plan.narrative = "This is my narrative"
plan.originate()  # <-- only validate here

[mbiannaccone]

good idea. want me to tackle that?

[aduane]

Sure, once this gets merged. We should chat about other priorities soon too.

[aduane]

Here is a sample protocol I was using for development:

import json

from datetime import datetime

from canvas_sdk.effects import Effect, EffectType
from canvas_sdk.commands import (
    AssessCommand,
    DiagnoseCommand,
    GoalCommand,
    HistoryOfPresentIllnessCommand,
    MedicationStatementCommand,
    PlanCommand,
    PrescribeCommand,
    QuestionnaireCommand,
    ReasonForVisitCommand,
    StopMedicationCommand,
    UpdateGoalCommand,
)
from canvas_sdk.events import EventType
from canvas_sdk.protocols import BaseProtocol
from logger import log


class Protocol(BaseProtocol):
    RESPONDS_TO = EventType.Name(EventType.ASSESS_COMMAND__CONDITION_SELECTED)
    #RESPONDS_TO = EventType.Name(EventType.UPDATE_GOAL_COMMAND__POST_DELETE)
    #RESPONDS_TO = EventType.Name(EventType.MEDICATION_STATEMENT_COMMAND__POST_DELETE)

    def compute(self):
        ## assess = AssessCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     narrative="Let's assess",
        ##     status=AssessCommand.Status.STABLE,
        ##     background="this is the background",
        ##     condition_id=self.context["data"]["condition"]["id"]
        ## )
        ## diagnose = DiagnoseCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     icd10_code="F419",
        ##     background="In today's modern world...",
        ##     approximate_date_of_onset=datetime.strptime("2024-06-23", "%Y-%m-%d"),
        ##     today_assessment="Pt needs to log off for at least a month.",
        ## )
        ## goal = GoalCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     goal_statement="Eat a ton of tacos",
        ##     start_date=datetime.strptime("2024-06-23", "%Y-%m-%d"),
        ##     due_date=datetime.strptime("2024-07-23", "%Y-%m-%d"),
        ##     achievement_status=GoalCommand.AchievementStatus.NO_PROGRESS,
        ##     priority=GoalCommand.Priority.HIGH,
        ##     progress="Pt is researching local taquerias.",
        ## )
        ## hpi = HistoryOfPresentIllnessCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     narrative="Read too much twitter, got sad."
        ## )
        ## medication_statement = MedicationStatementCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     fdb_code="218832",
        ##     sig="A flintstone a day keeps the scurvy away."
        ## )
        ## plan = PlanCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     narrative="What's the plan?"
        ## )
        ## unstructured_reason_for_visit = ReasonForVisitCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     structured=False,
        ##     comment="Dropped in for yearly exam",
        ## )
        ## structured_reason_for_visit = ReasonForVisitCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     structured=True,
        ##     coding={
        ##         "code": "129007",
        ##         "system": "http://snomed.info/sct",
        ##     },
        ##     comment="Dropped in for daily exam",
        ## )
        ## stop_medication = StopMedicationCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     medication_id=self.context["data"]["medication"]["id"],
        ##     rationale="I'm sorry Dave, I'm afraid I can't do that",
        ## )
        ## questionnaire = QuestionnaireCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     questionnaire_id="678b901b-a50d-4dfa-bc77-78f1142362fe"
        ## )
        ## update_goal = UpdateGoalCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     goal_id=self.context["data"]["goal"]["id"],
        ##     due_date=datetime.strptime("2030-01-22", "%Y-%m-%d"),
        ##     achievement_status=UpdateGoalCommand.AchievementStatus.IN_PROGRESS,
        ##     priority=UpdateGoalCommand.Priority.LOW,
        ##     progress="hello to this update goal command",
        ## )
        ## prescribe = PrescribeCommand(
        ##     user_id=0,
        ##     note_uuid=self.context["note"]["uuid"],
        ##     fdb_code='197702',
        ##     icd10_codes=['W5621XA'],  # TODO: needs to be condition uuids
        ##     sig='i po qhs',
        ##     days_supply=90,
        ##     quantity_to_dispense=90,
        ##     type_to_dispense='tablet',  # TODO: needs some work
        ##     refills=2,
        ##     substitutions=PrescribeCommand.Substitutions.ALLOWED,
        ##     pharmacy='1051008',
        ##     prescriber_id='3640cd20de8a470aa570a852859ac87e',
        ##     note_to_pharmacist='Hello',
        ## )

        return [
            ## assess.originate(),
            ## diagnose.originate(),
            ## goal.originate(),
            ## hpi.originate(),
            ## medication_statement.originate(),
            ## plan.originate(),
            ## unstructured_reason_for_visit.originate(),
            ## structured_reason_for_visit.originate(),
            ## stop_medication.originate(),
            ## questionnaire.originate(),
            ## prescribe.originate(),
            ## update_goal.originate(),
        ]

[aduane]

This breaks the interpreter if sent. Suppressing until the interpreter works.

[aduane]

@jrwils @mbiannaccone This is ready for review