Examples with Branch com.b2international.snowowl.core.branch.Branch used on opensource projects

Example 1 with Branch

use of com.b2international.snowowl.core.branch.Branch in project snow-owl by b2ihealthcare.

the class SnomedRf2ExportRequest method getIdentifierConcepts.

private List<SnomedConcept> getIdentifierConcepts(final RepositoryContext context, final String currentVersion) {
    final Collection<String> refSetsToLoad;
    if (refSets == null) {
        // Retrieve all reference sets if refSets is null
        final Request<BranchContext, SnomedReferenceSets> refSetRequest = SnomedRequests.prepareSearchRefSet().all().build();
        final SnomedReferenceSets allReferenceSets = execute(context, currentVersion, refSetRequest);
        refSetsToLoad = allReferenceSets.stream().map(r -> r.getId()).collect(Collectors.toSet());
    } else {
        refSetsToLoad = refSets;
    }
    final SnomedConceptSearchRequestBuilder refSetRequestBuilder = SnomedRequests.prepareSearchConcept().all().filterByIds(refSetsToLoad).setExpand("pt(),referenceSet()").setLocales(locales());
    final Request<BranchContext, SnomedConcepts> request = refSetRequestBuilder.build();
    final SnomedConcepts referenceSets = execute(context, currentVersion, request);
    // Return only the identifier concepts which have an existing reference set on this branch
    return referenceSets.stream().filter(c -> c.getReferenceSet() != null).collect(Collectors.toList());
}

Example 2 with Branch

use of com.b2international.snowowl.core.branch.Branch in project snow-owl by b2ihealthcare.

the class CodeSystemUpgradeSynchronizationRequest method execute.

@Override
public Boolean execute(RepositoryContext context) {
    final String message = String.format("Merge %s into %s", source, codeSystemId);
    CodeSystem codeSystem = CodeSystemRequests.prepareGetCodeSystem(codeSystemId.getResourceId()).build().execute(context);
    if (codeSystem.getUpgradeOf() == null) {
        throw new BadRequestException("Code System '%s' is not an Upgrade Code System. It cannot be synchronized with '%s'.", codeSystemId, source);
    }
    final String sourceBranchPath = context.service(ResourceURIPathResolver.class).resolve(context, List.of(source)).stream().findFirst().get();
    // merge all changes from the source to the current upgrade of branch
    final Merge merge = RepositoryRequests.merging().prepareCreate().setSource(sourceBranchPath).setTarget(codeSystem.getBranchPath()).setUserId(context.service(User.class).getUsername()).setCommitComment(message).setSquash(false).build(codeSystem.getToolingId()).getRequest().execute(context);
    if (merge.getStatus() != Merge.Status.COMPLETED) {
        // report conflicts
        ApiError apiError = merge.getApiError();
        Collection<MergeConflict> conflicts = merge.getConflicts();
        context.log().error("Failed to sync source CodeSystem content to upgrade CodeSystem. Error: {}. Conflicts: {}", apiError.getMessage(), conflicts);
        throw new ConflictException("Upgrade code system synchronization can not be performed due to conflicting content errors.").withAdditionalInfo(Map.of("conflicts", conflicts, "mergeError", apiError.getMessage()));
    }
    if (!codeSystem.getUpgradeOf().equals(source)) {
        return new BranchRequest<>(Branch.MAIN_PATH, new ResourceRepositoryCommitRequestBuilder().setBody((tx) -> {
            ResourceDocument entry = tx.lookup(codeSystemId.getResourceId(), ResourceDocument.class);
            tx.add(ResourceDocument.builder(entry).upgradeOf(source).build());
            tx.commit(String.format("Update upgradeOf from '%s' to '%s'", codeSystem.getUpgradeOf(), source));
            return Boolean.TRUE;
        }).setCommitComment(String.format("Complete upgrade of %s to %s", codeSystem.getUpgradeOf().getResourceId(), codeSystem.getExtensionOf())).build()).execute(context).getResultAs(Boolean.class);
    } else {
        return Boolean.TRUE;
    }
}

Example 3 with Branch

use of com.b2international.snowowl.core.branch.Branch in project snow-owl by b2ihealthcare.

the class SnomedBranchRequestTest method createTwoBranchesSameTimeWithSameName.

@Test
public void createTwoBranchesSameTimeWithSameName() throws Exception {
    final Branching branches = RepositoryRequests.branching();
    // try to create two branches at the same time
    final String branchName = UUID.randomUUID().toString();
    final Promise<String> first = branches.prepareCreate().setParent(branchPath).setName(branchName).build(REPOSITORY_ID).execute(bus);
    final Promise<String> second = branches.prepareCreate().setParent(branchPath).setName(branchName).build(REPOSITORY_ID).execute(bus);
    final boolean sameBaseTimestamp = Promise.all(first, second).then(input -> {
        final Branch first1 = branches.prepareGet((String) input.get(0)).build(REPOSITORY_ID).execute(bus).getSync();
        final Branch second1 = branches.prepareGet((String) input.get(1)).build(REPOSITORY_ID).execute(bus).getSync();
        return first1.baseTimestamp() == second1.baseTimestamp();
    }).fail(e -> {
        if (e instanceof AlreadyExistsException) {
            return true;
        } else {
            throw new RuntimeException(e);
        }
    }).getSync();
    // fail the test only when the API managed to create two branches with different base timestamp which should not happen
    if (!sameBaseTimestamp) {
        fail("Two branches created with the same name but different baseTimestamp");
    }
}

Example 4 with Branch

use of com.b2international.snowowl.core.branch.Branch in project snow-owl by b2ihealthcare.

the class SnomedBranchRequestTest method createBranchAndCommitToParent.

@Test
public void createBranchAndCommitToParent() throws Exception {
    final Branching branches = RepositoryRequests.branching();
    final Merging merges = RepositoryRequests.merging();
    final String branchA = UUID.randomUUID().toString();
    final String branchB = UUID.randomUUID().toString();
    final String first = branches.prepareCreate().setParent(branchPath).setName(branchA).build(REPOSITORY_ID).execute(bus).getSync();
    final SnomedDescriptionCreateRequestBuilder fsnBuilder = SnomedRequests.prepareNewDescription().setIdFromNamespace(SnomedIdentifiers.INT_NAMESPACE).setModuleId(Concepts.MODULE_ROOT).setTerm("FSN " + branchA).setTypeId(Concepts.FULLY_SPECIFIED_NAME).setAcceptability(ImmutableMap.of(Concepts.REFSET_LANGUAGE_TYPE_UK, Acceptability.PREFERRED));
    final SnomedDescriptionCreateRequestBuilder ptBuilder = SnomedRequests.prepareNewDescription().setIdFromNamespace(SnomedIdentifiers.INT_NAMESPACE).setModuleId(Concepts.MODULE_ROOT).setTerm("PT " + branchA).setTypeId(Concepts.SYNONYM).setAcceptability(ImmutableMap.of(Concepts.REFSET_LANGUAGE_TYPE_UK, Acceptability.PREFERRED));
    final AsyncRequest<CommitResult> conceptRequest = SnomedRequests.prepareNewConcept().setModuleId(Concepts.MODULE_ROOT).setIdFromNamespace(SnomedIdentifiers.INT_NAMESPACE).addParent(Concepts.ROOT_CONCEPT).addDescription(fsnBuilder).addDescription(ptBuilder).build(first, RestExtensions.USER, "Created new concept");
    final CommitResult info = conceptRequest.execute(bus).getSync();
    final String conceptId = info.getResultAs(String.class);
    final String firstParentPath = BranchPathUtils.createPath(first).getParentPath();
    final Request<ServiceProvider, Merge> mergeRequest = merges.prepareCreate().setSource(first).setTarget(firstParentPath).setUserId(User.SYSTEM.getUsername()).setCommitComment("Merging changes").build(REPOSITORY_ID).getRequest();
    final String mergeJobId = JobRequests.prepareSchedule().setDescription("Merging changes").setRequest(mergeRequest).setUser(User.SYSTEM.getUsername()).buildAsync().execute(bus).getSync();
    final RemoteJobEntry mergeJobResult = JobRequests.waitForJob(bus, mergeJobId);
    final Merge merge = mergeJobResult.getResultAs(JsonSupport.getDefaultObjectMapper(), Merge.class);
    assertEquals(true, merge.getConflicts().isEmpty());
    String second = branches.prepareCreate().setParent(firstParentPath).setName(branchB).build(REPOSITORY_ID).execute(bus).getSync();
    final Branch sourceBranch = branches.prepareGet(merge.getSource()).build(REPOSITORY_ID).execute(bus).getSync();
    final Branch secondBranch = branches.prepareGet(second).build(REPOSITORY_ID).execute(bus).getSync();
    assertBranchesCreated(branchA, branchB, sourceBranch, secondBranch);
    assertBranchSegmentsValid(merge.getTarget(), sourceBranch.path(), secondBranch.path());
    // Check that the concept is visible on parent
    SnomedRequests.prepareGetConcept(conceptId).build(firstParentPath).execute(bus).getSync();
}

Example 5 with Branch

use of com.b2international.snowowl.core.branch.Branch in project snow-owl by b2ihealthcare.

the class SnomedBranchRequestTest method createTwoBranchesSameTimeWithDifferentName.

@Test
public void createTwoBranchesSameTimeWithDifferentName() throws Exception {
    final Branching branches = RepositoryRequests.branching();
    // try to create two branches at the same time
    final String branchA = UUID.randomUUID().toString();
    final String branchB = UUID.randomUUID().toString();
    final Promise<String> first = branches.prepareCreate().setParent(branchPath).setName(branchA).build(REPOSITORY_ID).execute(bus);
    final Promise<String> second = branches.prepareCreate().setParent(branchPath).setName(branchB).build(REPOSITORY_ID).execute(bus);
    Promise.all(first, second).then(input -> {
        final Branch firstBranch = branches.prepareGet((String) input.get(0)).build(REPOSITORY_ID).execute(bus).getSync();
        final Branch secondBranch = branches.prepareGet((String) input.get(1)).build(REPOSITORY_ID).execute(bus).getSync();
        assertBranchesCreated(branchA, branchB, firstBranch, secondBranch);
        assertBranchSegmentsValid(branchPath, firstBranch.path(), secondBranch.path());
        return null;
    }).getSync();
}