onconova.oncology.controllers.comorbidities

ComorbiditiesAssessmentController

Bases: ControllerBase

create_comorbidities_assessment(payload)

Source code in onconova/oncology/controllers/comorbidities.py

@route.post(
    path="",
    response={201: ModifiedResourceSchema, **COMMON_HTTP_ERRORS},
    permissions=[perms.CanManageCases],
    operation_id="createComorbiditiesAssessment",
)
def create_comorbidities_assessment(self, payload: scm.ComorbiditiesAssessmentCreate): 
    return 201, payload.model_dump_django()

delete_comorbidities_assessment(comorbiditiesAssessmentId)

Source code in onconova/oncology/controllers/comorbidities.py

@route.delete(
    path="/{comorbiditiesAssessmentId}",
    response={204: None, 404: None, **COMMON_HTTP_ERRORS},
    permissions=[perms.CanManageCases],
    operation_id="deleteComorbiditiesAssessment",
)
def delete_comorbidities_assessment(self, comorbiditiesAssessmentId: str):
    instance = get_object_or_404(
        orm.ComorbiditiesAssessment, id=comorbiditiesAssessmentId
    )
    instance.delete()
    return 204, None

get_all_comorbidities_assessment_history_events(comorbiditiesAssessmentId)

Source code in onconova/oncology/controllers/comorbidities.py

@route.get(
    path="/{comorbiditiesAssessmentId}/history/events",
    response={
        200: Paginated[
            HistoryEvent.bind_schema(scm.ComorbiditiesAssessmentCreate)
        ],
        404: None,
        **COMMON_HTTP_ERRORS,
    },
    permissions=[perms.CanViewCases],
    operation_id="getAllComorbiditiesAssessmentHistoryEvents",
)
@paginate()
@ordering()
def get_all_comorbidities_assessment_history_events(
    self, comorbiditiesAssessmentId: str
):
    instance = get_object_or_404(
        orm.ComorbiditiesAssessment, id=comorbiditiesAssessmentId
    )
    return pghistory.models.Events.objects.tracks(instance).all()  # type: ignore

get_all_comorbidities_assessments_matching_the_query(query)

Source code in onconova/oncology/controllers/comorbidities.py

@route.get(
    path="",
    response={
        200: Paginated[scm.ComorbiditiesAssessment],
        **COMMON_HTTP_ERRORS,
    },
    permissions=[perms.CanViewCases],
    operation_id="getComorbiditiesAssessments",
)
@paginate()
@ordering()
@anonymize()
def get_all_comorbidities_assessments_matching_the_query(self, query: Query[scm.ComorbiditiesAssessmentFilters]):  # type: ignore
    queryset = orm.ComorbiditiesAssessment.objects.all().order_by("-date")
    return query.filter(queryset)

get_all_comorbidities_panels()

Source code in onconova/oncology/controllers/comorbidities.py

@route.get(
    path="/meta/panels",
    response={200: List[scm.ComorbiditiesPanel], **COMMON_HTTP_ERRORS},
    permissions=[perms.CanViewCases],
    operation_id="getComorbiditiesPanels",
)
def get_all_comorbidities_panels(self):  # type: ignore
    return [
        scm.ComorbiditiesPanel(
            name=name,
            categories=[
                scm.ComorbidityPanelCategory.model_validate(
                    dict(
                        label=category.label,
                        conditions=list(
                            ICD10Condition.objects.filter(code__in=category.codes)
                        ),
                    )
                )
                for category in [
                    category
                    for category in panel.__dict__.values()
                    if isinstance(category, ComorbidityPanelCategoryType)
                ]
            ],
        )
        for name, panel in orm.ComorbiditiesAssessment.COMORBIDITY_PANELS_DETAILS.items()
    ]

get_comorbidities_assessment_by_id(comorbiditiesAssessmentId)

Source code in onconova/oncology/controllers/comorbidities.py

@route.get(
    path="/{comorbiditiesAssessmentId}",
    response={200: scm.ComorbiditiesAssessment, 404: None, **COMMON_HTTP_ERRORS},
    permissions=[perms.CanViewCases],
    operation_id="getComorbiditiesAssessmentById",
)
@anonymize()
def get_comorbidities_assessment_by_id(self, comorbiditiesAssessmentId: str):
    return get_object_or_404(orm.ComorbiditiesAssessment, id=comorbiditiesAssessmentId)

get_comorbidities_assessment_history_event_by_id(comorbiditiesAssessmentId, eventId)

Source code in onconova/oncology/controllers/comorbidities.py

@route.get(
    path="/{comorbiditiesAssessmentId}/history/events/{eventId}",
    response={
        200: HistoryEvent.bind_schema(scm.ComorbiditiesAssessmentCreate),
        404: None,
        **COMMON_HTTP_ERRORS,
    },
    permissions=[perms.CanViewCases],
    operation_id="getComorbiditiesAssessmentHistoryEventById",
)
def get_comorbidities_assessment_history_event_by_id(
    self, comorbiditiesAssessmentId: str, eventId: str
):
    instance = get_object_or_404(
        orm.ComorbiditiesAssessment, id=comorbiditiesAssessmentId
    )
    return get_object_or_404(
        pghistory.models.Events.objects.tracks(instance), pgh_id=eventId  # type: ignore
    )

get_comorbidities_panel_by_name(panel)

Source code in onconova/oncology/controllers/comorbidities.py

@route.get(
    path="/meta/panels/{panel}",
    response={200: scm.ComorbiditiesPanel, 404: None, **COMMON_HTTP_ERRORS},
    permissions=[perms.CanViewCases],
    operation_id="getComorbiditiesPanelsByName",
)
def get_comorbidities_panel_by_name(self, panel: ComorbiditiesAssessmentPanelChoices):
    panel_details = orm.ComorbiditiesAssessment.COMORBIDITY_PANELS_DETAILS.get(panel)
    if not panel_details:
        return 404
    panel_categories = [
        category
        for category in panel_details.__dict__.values()
        if isinstance(category, ComorbidityPanelCategoryType)
    ]
    return 200, scm.ComorbiditiesPanel(
        name=str(panel),
        categories=[
            scm.ComorbidityPanelCategory.model_validate(
                dict(
                    label=category.label,
                    default=ICD10Condition.objects.filter(
                        code=category.default
                    ).first(),
                    conditions=list(
                        ICD10Condition.objects.filter(code__in=category.codes)
                    ),
                )
            )
            for category in panel_categories
        ],
    )

revert_comorbidities_assessment_to_history_event(comorbiditiesAssessmentId, eventId)

Source code in onconova/oncology/controllers/comorbidities.py

@route.put(
    path="/{comorbiditiesAssessmentId}/history/events/{eventId}/reversion",
    response={201: ModifiedResourceSchema, 404: None, **COMMON_HTTP_ERRORS},
    permissions=[perms.CanManageCases],
    operation_id="revertComorbiditiesAssessmentToHistoryEvent",
)
def revert_comorbidities_assessment_to_history_event(
    self, comorbiditiesAssessmentId: str, eventId: str
):
    instance = get_object_or_404(
        orm.ComorbiditiesAssessment, id=comorbiditiesAssessmentId
    )
    return 201, get_object_or_404(instance.events, pgh_id=eventId).revert()

update_comorbidities_assessment(comorbiditiesAssessmentId, payload)

Source code in onconova/oncology/controllers/comorbidities.py

@route.put(
    path="/{comorbiditiesAssessmentId}",
    response={200: ModifiedResourceSchema, 404: None, **COMMON_HTTP_ERRORS},
    permissions=[perms.CanManageCases],
    operation_id="updateComorbiditiesAssessment",
)
def update_comorbidities_assessment(self, comorbiditiesAssessmentId: str, payload: scm.ComorbiditiesAssessmentCreate):  
    with transaction.atomic():
        instance = get_object_or_404(
            orm.ComorbiditiesAssessment, id=comorbiditiesAssessmentId
        )
        return scm.ComorbiditiesAssessmentCreate.model_validate(payload).model_dump_django(instance=instance)

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