Examples with RelatedArtifact org.hl7.fhir.r5.model.RelatedArtifact used on opensource projects

Example 31 with RelatedArtifact

use of org.hl7.fhir.r5.model.RelatedArtifact in project cqf-ruler by DBCG.

the class ActivityDefinitionApplyProvider method resolveTask.

private Task resolveTask(ActivityDefinition activityDefinition, String patientId) {
    Task task = new Task();
    task.setStatus(Task.TaskStatus.DRAFT);
    task.setIntent(Task.TaskIntent.PROPOSAL);
    task.setFor(new Reference(patientId));
    Task.ParameterComponent input = new Task.ParameterComponent();
    if (activityDefinition.hasCode()) {
        task.setCode(activityDefinition.getCode());
        input.setType(activityDefinition.getCode());
    }
    // Extension defined by CPG-on-FHIR for Questionnaire canonical URI
    Extension collectsWith = activityDefinition.getExtensionByUrl("http://hl7.org/fhir/uv/cpg/StructureDefinition/cpg-collectWith");
    if (collectsWith != null && collectsWith.getValueAsPrimitive().toString() != null) {
        CanonicalType uri = new CanonicalType(collectsWith.getValueAsPrimitive().toString());
        input.setValue(uri);
    }
    if (activityDefinition.hasRelatedArtifact()) {
        for (RelatedArtifact artifact : activityDefinition.getRelatedArtifact()) {
            if (artifact.hasUrl()) {
                Attachment attachment = new Attachment().setUrl(artifact.getUrl());
                if (artifact.hasDisplay()) {
                    attachment.setTitle(artifact.getDisplay());
                }
                input.setValue(artifact.hasDisplay() ? attachment.setTitle(artifact.getDisplay()) : attachment);
            }
        // TODO - other relatedArtifact types
        }
    }
    // If input has been populated, then add it to the Task.
    if (input.getType() != null || input.getValue() != null) {
        task.addInput(input);
    }
    return task;
}

Example 32 with RelatedArtifact

use of org.hl7.fhir.r5.model.RelatedArtifact in project cqf-ruler by DBCG.

the class Session method resolveCdsHooksPlanDefinition.

// For library use
public CarePlan resolveCdsHooksPlanDefinition(Context context, PlanDefinition planDefinition, String patientId, RequestDetails theRequest) {
    CarePlanBuilder carePlanBuilder = new CarePlanBuilder();
    RequestGroupBuilder requestGroupBuilder = new RequestGroupBuilder().buildStatus().buildIntent();
    // links
    if (planDefinition.hasRelatedArtifact()) {
        List<Extension> extensions = new ArrayList<>();
        for (RelatedArtifact relatedArtifact : planDefinition.getRelatedArtifact()) {
            AttachmentBuilder attachmentBuilder = new AttachmentBuilder();
            ExtensionBuilder extensionBuilder = new ExtensionBuilder();
            if (relatedArtifact.hasDisplay()) {
                // label
                attachmentBuilder.buildTitle(relatedArtifact.getDisplay());
            }
            if (relatedArtifact.hasUrl()) {
                // url
                attachmentBuilder.buildUrl(relatedArtifact.getUrl());
            }
            if (relatedArtifact.hasExtension()) {
                // type
                attachmentBuilder.buildExtension(relatedArtifact.getExtension());
            }
            extensionBuilder.buildUrl("http://example.org");
            extensionBuilder.buildValue(attachmentBuilder.build());
            extensions.add(extensionBuilder.build());
        }
        requestGroupBuilder.buildExtension(extensions);
    }
    resolveActions(planDefinition.getAction(), context, patientId, requestGroupBuilder, new ArrayList<>(), theRequest);
    CarePlanActivityBuilder carePlanActivityBuilder = new CarePlanActivityBuilder();
    carePlanActivityBuilder.buildReferenceTarget(requestGroupBuilder.build());
    carePlanBuilder.buildActivity(carePlanActivityBuilder.build());
    return carePlanBuilder.build();
}

Example 33 with RelatedArtifact

use of org.hl7.fhir.r5.model.RelatedArtifact in project cqf-ruler by DBCG.

the class STU3CarePlanToCdsCard method convert.

private static List<CdsCard> convert(RequestGroup requestGroup) {
    List<CdsCard> cards = new ArrayList<>();
    // links
    List<CdsCard.Links> links = new ArrayList<>();
    if (requestGroup.hasExtension()) {
        for (Extension extension : requestGroup.getExtension()) {
            CdsCard.Links link = new CdsCard.Links();
            if (extension.getValue() instanceof Attachment) {
                Attachment attachment = (Attachment) extension.getValue();
                if (attachment.hasUrl()) {
                    link.setUrl(attachment.getUrl());
                }
                if (attachment.hasTitle()) {
                    link.setLabel(attachment.getTitle());
                }
                if (attachment.hasExtension()) {
                    link.setType(attachment.getExtensionFirstRep().getValue().primitiveValue());
                }
            } else {
                throw new RuntimeException("Invalid link extension type: " + extension.getValue().fhirType());
            }
            links.add(link);
        }
    }
    if (requestGroup.hasAction()) {
        for (RequestGroup.RequestGroupActionComponent action : requestGroup.getAction()) {
            IParser jsonParser = FhirContext.forCached(FhirVersionEnum.DSTU3).newJsonParser().setPrettyPrint(true);
            CdsCard card = new CdsCard(jsonParser);
            // basic
            if (action.hasTitle()) {
                card.setSummary(action.getTitle());
            }
            if (action.hasDescription()) {
                card.setDetail(action.getDescription());
            }
            if (action.hasExtension()) {
                card.setIndicator(action.getExtensionFirstRep().getValue().toString());
            }
            // source
            if (action.hasDocumentation()) {
                // Assuming first related artifact has everything
                RelatedArtifact documentation = action.getDocumentationFirstRep();
                CdsCard.Source source = new CdsCard.Source();
                if (documentation.hasDisplay()) {
                    source.setLabel(documentation.getDisplay());
                }
                if (documentation.hasUrl()) {
                    source.setUrl(documentation.getUrl());
                }
                if (documentation.hasDocument() && documentation.getDocument().hasUrl()) {
                    source.setIcon(documentation.getDocument().getUrl());
                }
                card.setSource(source);
            }
            if (action.hasSelectionBehavior()) {
                card.setSelectionBehavior(action.getSelectionBehavior().toCode());
            }
            // suggestions
            // TODO - uuid
            boolean hasSuggestions = false;
            CdsCard.Suggestions suggestions = new CdsCard.Suggestions();
            CdsCard.Suggestions.Action actions = new CdsCard.Suggestions.Action();
            if (action.hasLabel()) {
                suggestions.setLabel(action.getLabel());
                hasSuggestions = true;
                if (action.hasDescription()) {
                    actions.setDescription(action.getDescription());
                }
                if (action.hasType() && !action.getType().getCode().equals("fire-event")) {
                    String code = action.getType().getCode();
                    actions.setType(CdsCard.Suggestions.Action.ActionType.valueOf(code.equals("remove") ? "delete" : code));
                }
                if (action.hasResource()) {
                    if (actions.getType().name().equalsIgnoreCase("create")) {
                        action.getResourceTarget().setId((String) null);
                    }
                    actions.setResource(action.getResourceTarget());
                }
            }
            if (hasSuggestions) {
                suggestions.addAction(actions);
                card.addSuggestion(suggestions);
            }
            if (!links.isEmpty()) {
                card.setLinks(links);
            }
            cards.add(card);
        }
    }
    return cards;
}

Example 34 with RelatedArtifact

use of org.hl7.fhir.r5.model.RelatedArtifact in project quality-measure-and-cohort-service by Alvearie.

the class CohortCLITest method testMainFHIRLibrariesWithDependencies.

@Test
public void testMainFHIRLibrariesWithDependencies() throws Exception {
    FhirServerConfig fhirConfig = getFhirServerConfig();
    mockFhirResourceRetrieval("/metadata?_format=json", getCapabilityStatement());
    Patient patient = getPatient("123", Enumerations.AdministrativeGender.FEMALE, "1978-05-06");
    mockFhirResourceRetrieval(patient);
    Library root = getLibrary("Breast-Cancer-Screening", DEFAULT_RESOURCE_VERSION, "cql/includes/Breast-Cancer-Screening.cql");
    Library helpers = getLibrary("FHIRHelpers", "4.0.0", "cql/fhir-helpers/FHIRHelpers.cql", "text/cql", "cql/fhir-helpers/FHIRHelpers.xml", "application/elm+json");
    RelatedArtifact related = new RelatedArtifact();
    related.setType(RelatedArtifactType.DEPENDSON);
    related.setResource("/Library/" + helpers.getId());
    root.addRelatedArtifact(related);
    mockFhirResourceRetrieval(root);
    mockFhirSingletonBundleRetrieval(helpers);
    File tmpFile = new File("target/fhir-stub.json");
    ObjectMapper om = new ObjectMapper();
    try (Writer w = new FileWriter(tmpFile)) {
        w.write(om.writeValueAsString(fhirConfig));
    }
    try {
        PrintStream originalOut = System.out;
        ByteArrayOutputStream baos = new ByteArrayOutputStream();
        try (PrintStream captureOut = new PrintStream(baos)) {
            System.setOut(captureOut);
            CohortCLI.main(new String[] { "-d", tmpFile.getAbsolutePath(), "-f", root.getId(), "-l", root.getName(), "-v", root.getVersion(), "-c", patient.getId(), "-s", "CQL" });
        } finally {
            System.setOut(originalOut);
        }
        String output = new String(baos.toByteArray());
        String[] lines = output.split("\r?\n");
        assertEquals(output, 12, lines.length);
        System.out.println(output);
        verify(1, getRequestedFor(urlEqualTo("/Patient/" + patient.getId() + "?_format=json")));
        verify(1, getRequestedFor(urlEqualTo("/Library/" + root.getId() + "?_format=json")));
    } finally {
        tmpFile.delete();
    }
}

Example 35 with RelatedArtifact

use of org.hl7.fhir.r5.model.RelatedArtifact in project quality-measure-and-cohort-service by Alvearie.

the class R4LibraryDependencyGatherer method recurse.

private List<Library> recurse(Library library, Set<String> loadedCanonicalUrls) {
    String canonicalUrl = CanonicalHelper.toCanonicalUrl(library.getUrl(), library.getVersion());
    if (loadedCanonicalUrls.contains(canonicalUrl)) {
        return Collections.emptyList();
    }
    List<Library> retVal = new ArrayList<>();
    retVal.add(library);
    loadedCanonicalUrls.add(canonicalUrl);
    if (library.hasRelatedArtifact()) {
        for (RelatedArtifact related : library.getRelatedArtifact()) {
            if (related.hasType() && related.getType().equals(RelatedArtifact.RelatedArtifactType.DEPENDSON) && related.hasResource()) {
                String relatedIdentifier = related.getResource();
                Library relatedLibrary = resolveLibrary(relatedIdentifier);
                if (relatedLibrary != null) {
                    retVal.addAll(recurse(relatedLibrary, loadedCanonicalUrls));
                }
            }
        }
    }
    return retVal;
}