Examples with Dataverse edu.harvard.iq.dataverse.Dataverse used on opensource projects

Example 26 with Dataverse

use of edu.harvard.iq.dataverse.Dataverse in project dataverse by IQSS.

the class BatchImport method startBatchJob.

private Response startBatchJob(String fileDir, String parentIdtf, String apiKey, ImportType importType, Boolean createDV) {
    if (createDV == null) {
        createDV = Boolean.FALSE;
    }
    try {
        DataverseRequest dataverseRequest;
        try {
            dataverseRequest = createDataverseRequest(findAuthenticatedUserOrDie());
        } catch (WrappedResponse wr) {
            return wr.getResponse();
        }
        if (parentIdtf == null) {
            parentIdtf = "root";
        }
        Dataverse owner = findDataverse(parentIdtf);
        if (owner == null) {
            if (createDV) {
                owner = importService.createDataverse(parentIdtf, dataverseRequest);
            } else {
                return error(Response.Status.NOT_FOUND, "Can't find dataverse with identifier='" + parentIdtf + "'");
            }
        }
        batchService.processFilePath(fileDir, parentIdtf, dataverseRequest, owner, importType, createDV);
    } catch (ImportException e) {
        return this.error(Response.Status.BAD_REQUEST, "Import Exception, " + e.getMessage());
    }
    return this.accepted();
}

Example 27 with Dataverse

use of edu.harvard.iq.dataverse.Dataverse in project dataverse by IQSS.

the class ContainerManagerImpl method replaceMetadata.

@Override
public DepositReceipt replaceMetadata(String uri, Deposit deposit, AuthCredentials authCredentials, SwordConfiguration swordConfiguration) throws SwordError, SwordServerException, SwordAuthException {
    AuthenticatedUser user = swordAuth.auth(authCredentials);
    DataverseRequest dvReq = new DataverseRequest(user, httpRequest);
    logger.fine("replaceMetadata called with url: " + uri);
    urlManager.processUrl(uri);
    String targetType = urlManager.getTargetType();
    if (!targetType.isEmpty()) {
        logger.fine("operating on target type: " + urlManager.getTargetType());
        if ("dataverse".equals(targetType)) {
            throw new SwordError(UriRegistry.ERROR_BAD_REQUEST, "Metadata replace of dataverse is not supported.");
        } else if ("study".equals(targetType)) {
            logger.fine("replacing metadata for dataset");
            // do a sanity check on the XML received
            try {
                SwordEntry swordEntry = deposit.getSwordEntry();
                logger.fine("deposit XML received by replaceMetadata():\n" + swordEntry);
            } catch (ParseException ex) {
                throw new SwordError(UriRegistry.ERROR_BAD_REQUEST, "Can not replace dataset metadata due to malformed Atom entry: " + ex);
            }
            String globalId = urlManager.getTargetIdentifier();
            Dataset dataset = datasetService.findByGlobalId(globalId);
            if (dataset != null) {
                Dataverse dvThatOwnsDataset = dataset.getOwner();
                UpdateDatasetCommand updateDatasetCommand = new UpdateDatasetCommand(dataset, dvReq);
                if (!permissionService.isUserAllowedOn(user, updateDatasetCommand, dataset)) {
                    throw new SwordError(UriRegistry.ERROR_BAD_REQUEST, "User " + user.getDisplayInfo().getTitle() + " is not authorized to modify dataverse " + dvThatOwnsDataset.getAlias());
                }
                DatasetVersion datasetVersion = dataset.getEditVersion();
                // erase all metadata before creating populating dataset version
                List<DatasetField> emptyDatasetFields = new ArrayList<>();
                datasetVersion.setDatasetFields(emptyDatasetFields);
                String foreignFormat = SwordUtil.DCTERMS;
                try {
                    importGenericService.importXML(deposit.getSwordEntry().toString(), foreignFormat, datasetVersion);
                } catch (Exception ex) {
                    throw new SwordError(UriRegistry.ERROR_BAD_REQUEST, "problem calling importXML: " + ex);
                }
                swordService.addDatasetContact(datasetVersion, user);
                swordService.addDatasetDepositor(datasetVersion, user);
                swordService.addDatasetSubjectIfMissing(datasetVersion);
                swordService.setDatasetLicenseAndTermsOfUse(datasetVersion, deposit.getSwordEntry());
                try {
                    engineSvc.submit(updateDatasetCommand);
                } catch (CommandException ex) {
                    throw new SwordError(UriRegistry.ERROR_BAD_REQUEST, "problem updating dataset: " + ex);
                }
                ReceiptGenerator receiptGenerator = new ReceiptGenerator();
                String baseUrl = urlManager.getHostnamePlusBaseUrlPath(uri);
                DepositReceipt depositReceipt = receiptGenerator.createDatasetReceipt(baseUrl, dataset);
                return depositReceipt;
            } else {
                throw new SwordError(UriRegistry.ERROR_BAD_REQUEST, "Could not find dataset based on global id (" + globalId + ") in URL: " + uri);
            }
        } else {
            throw new SwordError(UriRegistry.ERROR_BAD_REQUEST, "Unknown target type specified on which to replace metadata: " + uri);
        }
    } else {
        throw new SwordError(UriRegistry.ERROR_BAD_REQUEST, "No target specified on which to replace metadata: " + uri);
    }
}

Example 28 with Dataverse

use of edu.harvard.iq.dataverse.Dataverse in project dataverse by IQSS.

the class JsonParserTest method testParseNoNameDataverse.

/**
 * Test that a dataverse JSON object without name fails to parse.
 * @throws JsonParseException if all goes well - this is expected.
 * @throws IOException when test file IO goes wrong - this is bad.
 */
@Test(expected = JsonParseException.class)
public void testParseNoNameDataverse() throws JsonParseException, IOException {
    JsonObject dvJson;
    try (InputStream jsonFile = ClassLoader.getSystemResourceAsStream("json/no-name-dataverse.json")) {
        dvJson = Json.createReader(jsonFile).readObject();
        Dataverse actual = sut.parseDataverse(dvJson);
    }
}

Example 29 with Dataverse

use of edu.harvard.iq.dataverse.Dataverse in project dataverse by IQSS.

the class JsonParserTest method testParseNoContactEmailsDataverse.

/**
 * Test that a dataverse JSON object with contacts, but without contact
 * email fails to parse.
 * @throws JsonParseException if all goes well - this is expected.
 * @throws IOException when test file IO goes wrong - this is bad.
 */
@Test(expected = JsonParseException.class)
public void testParseNoContactEmailsDataverse() throws JsonParseException, IOException {
    JsonObject dvJson;
    try (InputStream jsonFile = ClassLoader.getSystemResourceAsStream("json/no-contacts-dataverse.json")) {
        dvJson = Json.createReader(jsonFile).readObject();
        Dataverse actual = sut.parseDataverse(dvJson);
    }
}

Example 30 with Dataverse

use of edu.harvard.iq.dataverse.Dataverse in project dataverse by IQSS.

the class PrivateUrlUtilTest method testGetUserFromRoleAssignmentNonDataset.

@Test
public void testGetUserFromRoleAssignmentNonDataset() {
    DataverseRole aRole = null;
    PrivateUrlUser privateUrlUserIn = new PrivateUrlUser(42);
    RoleAssignee anAssignee = privateUrlUserIn;
    DvObject nonDataset = new Dataverse();
    nonDataset.setId(123l);
    String privateUrlToken = null;
    RoleAssignment ra = new RoleAssignment(aRole, anAssignee, nonDataset, privateUrlToken);
    PrivateUrlUser privateUrlUserOut = PrivateUrlUtil.getPrivateUrlUserFromRoleAssignment(ra);
    assertNull(privateUrlUserOut);
}