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package edu.harvard.iq.dataverse.api;
import edu.harvard.iq.dataverse.*;
import edu.harvard.iq.dataverse.actionlogging.ActionLogServiceBean;
import static edu.harvard.iq.dataverse.api.Datasets.handleVersion;
import edu.harvard.iq.dataverse.authorization.AuthenticationServiceBean;
import edu.harvard.iq.dataverse.authorization.DataverseRole;
import edu.harvard.iq.dataverse.authorization.Permission;
import edu.harvard.iq.dataverse.authorization.RoleAssignee;
import edu.harvard.iq.dataverse.authorization.groups.GroupServiceBean;
import edu.harvard.iq.dataverse.authorization.users.AuthenticatedUser;
import edu.harvard.iq.dataverse.authorization.users.User;
import edu.harvard.iq.dataverse.confirmemail.ConfirmEmailServiceBean;
import edu.harvard.iq.dataverse.datacapturemodule.DataCaptureModuleServiceBean;
import edu.harvard.iq.dataverse.dataset.DatasetTypeServiceBean;
import edu.harvard.iq.dataverse.dataverse.featured.DataverseFeaturedItem;
import edu.harvard.iq.dataverse.engine.command.Command;
import edu.harvard.iq.dataverse.engine.command.DataverseRequest;
import edu.harvard.iq.dataverse.engine.command.exception.*;
import edu.harvard.iq.dataverse.engine.command.impl.GetDraftDatasetVersionCommand;
import edu.harvard.iq.dataverse.engine.command.impl.GetLatestAccessibleDatasetVersionCommand;
import edu.harvard.iq.dataverse.engine.command.impl.GetLatestPublishedDatasetVersionCommand;
import edu.harvard.iq.dataverse.engine.command.impl.GetSpecificPublishedDatasetVersionCommand;
import edu.harvard.iq.dataverse.externaltools.ExternalToolServiceBean;
import edu.harvard.iq.dataverse.license.LicenseServiceBean;
import edu.harvard.iq.dataverse.makedatacount.DatasetMetricsServiceBean;
import edu.harvard.iq.dataverse.mydata.Pager;
import edu.harvard.iq.dataverse.pidproviders.FailedPIDResolutionLoggingServiceBean;
import edu.harvard.iq.dataverse.pidproviders.PidUtil;
import edu.harvard.iq.dataverse.pidproviders.FailedPIDResolutionLoggingServiceBean.FailedPIDResolutionEntry;
import edu.harvard.iq.dataverse.locality.StorageSiteServiceBean;
import edu.harvard.iq.dataverse.metrics.MetricsServiceBean;
import edu.harvard.iq.dataverse.search.savedsearch.SavedSearchServiceBean;
import edu.harvard.iq.dataverse.settings.FeatureFlags;
import edu.harvard.iq.dataverse.settings.SettingsServiceBean;
import edu.harvard.iq.dataverse.util.BundleUtil;
import edu.harvard.iq.dataverse.util.DateUtil;
import edu.harvard.iq.dataverse.util.FileUtil;
import edu.harvard.iq.dataverse.util.SystemConfig;
import edu.harvard.iq.dataverse.util.json.JsonParser;
import edu.harvard.iq.dataverse.util.json.JsonUtil;
import edu.harvard.iq.dataverse.util.json.NullSafeJsonBuilder;
import edu.harvard.iq.dataverse.validation.PasswordValidatorServiceBean;
import jakarta.ejb.EJB;
import jakarta.ejb.EJBException;
import jakarta.inject.Inject;
import jakarta.json.*;
import jakarta.json.JsonValue.ValueType;
import jakarta.persistence.EntityManager;
import jakarta.persistence.NoResultException;
import jakarta.persistence.PersistenceContext;
import jakarta.servlet.http.HttpServletRequest;
import jakarta.validation.constraints.NotNull;
import jakarta.ws.rs.container.ContainerRequestContext;
import jakarta.ws.rs.core.Context;
import jakarta.ws.rs.core.HttpHeaders;
import jakarta.ws.rs.core.MediaType;
import jakarta.ws.rs.core.Response;
import jakarta.ws.rs.core.Response.ResponseBuilder;
import jakarta.ws.rs.core.Response.Status;
import java.io.InputStream;
import java.net.URI;
import java.time.Instant;
import java.util.*;
import java.util.concurrent.Callable;
import java.util.logging.Level;
import java.util.logging.Logger;
import static org.apache.commons.lang3.StringUtils.isNumeric;
/**
* Base class for API beans
* @author michael
*/
public abstract class AbstractApiBean {
private static final Logger logger = Logger.getLogger(AbstractApiBean.class.getName());
private static final String DATAVERSE_KEY_HEADER_NAME = "X-Dataverse-key";
protected static final String PERSISTENT_ID_KEY=":persistentId";
private static final String ALIAS_KEY=":alias";
public static final String STATUS_WF_IN_PROGRESS = "WORKFLOW_IN_PROGRESS";
public static final String DATAVERSE_WORKFLOW_INVOCATION_HEADER_NAME = "X-Dataverse-invocationID";
public static final String RESPONSE_MESSAGE_AUTHENTICATED_USER_REQUIRED = "Only authenticated users can perform the requested operation";
/**
* Utility class to convey a proper error response using Java's exceptions.
*/
public static class WrappedResponse extends Exception {
private final Response response;
public WrappedResponse(Response response) {
this.response = response;
}
public WrappedResponse( Throwable cause, Response response ) {
super( cause );
this.response = response;
}
public Response getResponse() {
return response;
}
/**
* Creates a new response, based on the original response and the passed message.
* Typical use would be to add a better error message to the HTTP response.
* @param message additional message to be added to the response.
* @return A Response with updated message field.
*/
public Response refineResponse( String message ) {
final Status statusCode = Response.Status.fromStatusCode(response.getStatus());
String baseMessage = getWrappedMessageWhenJson();
if ( baseMessage == null ) {
final Throwable cause = getCause();
baseMessage = (cause!=null ? cause.getMessage() : "");
}
return error(statusCode, message+" "+baseMessage);
}
/**
* In the common case of the wrapped response being of type JSON,
* return the message field it has (if any).
* @return the content of a message field, or {@code null}.
* @throws JsonException when JSON parsing fails.
*/
String getWrappedMessageWhenJson() {
if ( response.getMediaType().equals(MediaType.APPLICATION_JSON_TYPE) ) {
Object entity = response.getEntity();
if ( entity == null ) return null;
JsonObject obj = JsonUtil.getJsonObject(entity.toString());
if ( obj.containsKey("message") ) {
JsonValue message = obj.get("message");
return message.getValueType() == ValueType.STRING ? obj.getString("message") : message.toString();
} else {
return null;
}
} else {
return null;
}
}
}
@EJB
protected EjbDataverseEngine engineSvc;
@EJB
protected DvObjectServiceBean dvObjectSvc;
@EJB
protected DatasetServiceBean datasetSvc;
@EJB
protected DataFileServiceBean fileService;
@EJB
protected DataverseServiceBean dataverseSvc;
@EJB
protected AuthenticationServiceBean authSvc;
@EJB
protected DatasetFieldServiceBean datasetFieldSvc;
@EJB
protected MetadataBlockServiceBean metadataBlockSvc;
@EJB
protected LicenseServiceBean licenseSvc;
@EJB
protected DatasetTypeServiceBean datasetTypeSvc;
@EJB
protected UserServiceBean userSvc;
@EJB
protected DataverseRoleServiceBean rolesSvc;
@EJB
protected SettingsServiceBean settingsSvc;
@EJB
protected RoleAssigneeServiceBean roleAssigneeSvc;
@EJB
protected PermissionServiceBean permissionSvc;
@EJB
protected GroupServiceBean groupSvc;
@EJB
protected ActionLogServiceBean actionLogSvc;
@EJB
protected SavedSearchServiceBean savedSearchSvc;
@EJB
protected ConfirmEmailServiceBean confirmEmailSvc;
@EJB
protected UserNotificationServiceBean userNotificationSvc;
@EJB
protected DatasetVersionServiceBean datasetVersionSvc;
@EJB
protected SystemConfig systemConfig;
@EJB
protected DataCaptureModuleServiceBean dataCaptureModuleSvc;
@EJB
protected DatasetLinkingServiceBean dsLinkingService;
@EJB
protected DataverseLinkingServiceBean dvLinkingService;
@EJB
protected PasswordValidatorServiceBean passwordValidatorService;
@EJB
protected ExternalToolServiceBean externalToolService;
@EJB
protected DatasetMetricsServiceBean datasetMetricsService;
@EJB
DataFileServiceBean fileSvc;
@EJB
StorageSiteServiceBean storageSiteSvc;
@EJB
MetricsServiceBean metricsSvc;
@EJB
DvObjectServiceBean dvObjSvc;
@EJB
GuestbookResponseServiceBean gbRespSvc;
@EJB
TemplateServiceBean templateSvc;
@Inject
FailedPIDResolutionLoggingServiceBean fprLogService;
@PersistenceContext(unitName = "VDCNet-ejbPU")
protected EntityManager em;
@Context
protected HttpServletRequest httpRequest;
/**
* For pretty printing (indenting) of JSON output.
*/
public enum Format {
PRETTY
}
private final LazyRef<JsonParser> jsonParserRef = new LazyRef<>(new Callable<JsonParser>() {
@Override
public JsonParser call() throws Exception {
return new JsonParser(datasetFieldSvc, metadataBlockSvc,settingsSvc, licenseSvc, datasetTypeSvc);
}
});
/**
* Functional interface for handling HTTP requests in the APIs.
*
* @see #response(edu.harvard.iq.dataverse.api.AbstractApiBean.DataverseRequestHandler, edu.harvard.iq.dataverse.authorization.users.User)
*/
protected static interface DataverseRequestHandler {
Response handle( DataverseRequest u ) throws WrappedResponse;
}
/* ===================== *\
* Utility Methods *
* Get that DSL feelin' *
\* ===================== */
protected JsonParser jsonParser() {
return jsonParserRef.get();
}
protected boolean parseBooleanOrDie( String input ) throws WrappedResponse {
if (input == null ) throw new WrappedResponse( badRequest("Boolean value missing"));
input = input.trim();
if ( Util.isBoolean(input) ) {
return Util.isTrue(input);
} else {
throw new WrappedResponse( badRequest("Illegal boolean value '" + input + "'"));
}
}
// Get a Pager object for adding pagination to a list result
protected Pager getPager(Integer pageSize, Integer start) {
if (pageSize != null || start != null) {
int maxPageSize = pageSize != null ? Math.max(pageSize, 10) : 10;
int offset = start != null ? start : 0;
int selectedPageNumber = offset / maxPageSize + 1;
// Since a new Pager is created for each API call we need to default some values to make things work
int numResults = selectedPageNumber * maxPageSize;
return new Pager(numResults, maxPageSize, selectedPageNumber);
}
return null;
}
/**
* Returns the {@code key} query parameter from the current request, or {@code null} if
* the request has no such parameter.
* @param key Name of the requested parameter.
* @return Value of the requested parameter in the current request.
*/
protected String getRequestParameter( String key ) {
return httpRequest.getParameter(key);
}
protected String getRequestApiKey() {
String headerParamApiKey = httpRequest.getHeader(DATAVERSE_KEY_HEADER_NAME);
String queryParamApiKey = httpRequest.getParameter("key");
return headerParamApiKey!=null ? headerParamApiKey : queryParamApiKey;
}
protected User getRequestUser(ContainerRequestContext crc) {
return (User) crc.getProperty(ApiConstants.CONTAINER_REQUEST_CONTEXT_USER);
}
/**
* Gets the authenticated user from the ContainerRequestContext user property. If the user from the property
* is not authenticated, throws a wrapped "authenticated user required" user (HTTP UNAUTHORIZED) response.
* @param crc a ContainerRequestContext implementation
* @return The authenticated user
* @throws edu.harvard.iq.dataverse.api.AbstractApiBean.WrappedResponse in case the user is not authenticated.
*
* TODO:
* This method is designed to comply with existing authorization logic, based on the old findAuthenticatedUserOrDie method.
* Ideally, as for authentication, a filter could be implemented for authorization, which would extract and encapsulate the
* authorization logic from the AbstractApiBean.
*/
protected AuthenticatedUser getRequestAuthenticatedUserOrDie(ContainerRequestContext crc) throws WrappedResponse {
User requestUser = (User) crc.getProperty(ApiConstants.CONTAINER_REQUEST_CONTEXT_USER);
if (requestUser.isAuthenticated()) {
return (AuthenticatedUser) requestUser;
} else {
throw new WrappedResponse(authenticatedUserRequired());
}
}
/* ========= *\
* Finders *
\* ========= */
protected RoleAssignee findAssignee(String identifier) {
try {
RoleAssignee roleAssignee = roleAssigneeSvc.getRoleAssignee(identifier);
return roleAssignee;
} catch (EJBException ex) {
Throwable cause = ex;
while (cause.getCause() != null) {
cause = cause.getCause();
}
logger.log(Level.INFO, "Exception caught looking up RoleAssignee based on identifier ''{0}'': {1}", new Object[]{identifier, cause.getMessage()});
return null;
}
}
/**
* @param apiKey the key to find the user with
* @return the user, or null
*/
protected AuthenticatedUser findUserByApiToken( String apiKey ) {
return authSvc.lookupUser(apiKey);
}
protected Dataverse findDataverseOrDie( String dvIdtf ) throws WrappedResponse {
Dataverse dv = findDataverse(dvIdtf);
if ( dv == null ) {
throw new WrappedResponse(error( Response.Status.NOT_FOUND, "Can't find dataverse with identifier='" + dvIdtf + "'"));
}
return dv;
}
/** Find a dataverse but filter according to the visibility from the locallyFAIRRoleAssignments
*
* @param dvIdtf - the dataverse identifier
* @param req - the DataverseRequest
* @return the dataverse if found and visible, otherwise throws WrappedResponse
* @throws WrappedResponse if dataverse is not found (in findDatasetOrDie()) or not visible
*/
protected Dataverse findDataverseUserCanSeeOrDie(String dvIdtf, DataverseRequest req) throws WrappedResponse {
Dataverse dataverse = findDataverseOrDie(dvIdtf);
if (dataverse.isLocallyFAIR() && !permissionSvc.hasLocallyFAIRAccess(req, dataverse)) {
throw new WrappedResponse(error( Response.Status.NOT_FOUND, "Can't find dataverse with identifier='" + dvIdtf + "'"));
}
return dataverse;
}
protected Template findTemplateOrDie(Long templateId) throws WrappedResponse {
Template template = templateSvc.find(templateId);
if (template == null) {
throw new WrappedResponse(
error(Response.Status.NOT_FOUND, "Can't find template with identifier='" + templateId + "'"));
}
return template;
}
protected Template findTemplateInDataverseOrParentsOrDie(Long templateId, Dataverse dataverse) throws WrappedResponse {
List<Template> templates = new ArrayList<>();
templates.addAll(dataverse.getTemplates());
templates.addAll(dataverse.getParentTemplates());
Template template = templates.stream()
.filter(t -> Objects.equals(t.getId(), templateId))
.findFirst()
.orElse(null);
if (template == null) {
throw new WrappedResponse(
error(Response.Status.NOT_FOUND, "Can't find template with identifier='" + templateId + "'"));
}
return template;
}
protected DataverseLinkingDataverse findDataverseLinkingDataverseOrDie(String dataverseId, String linkedDataverseId) throws WrappedResponse {
DataverseLinkingDataverse dvld;
Dataverse dataverse = findDataverseOrDie(dataverseId);
Dataverse linkedDataverse = findDataverseOrDie(linkedDataverseId);
try {
dvld = dvLinkingService.findDataverseLinkingDataverse(dataverse.getId(), linkedDataverse.getId());
if (dvld == null) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.dataverselinking.error.not.found.ids", Arrays.asList(dataverseId, linkedDataverseId))));
}
return dvld;
} catch (NumberFormatException nfe) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.dataverselinking.error.not.found.bad.ids", Arrays.asList(dataverseId, linkedDataverseId))));
}
}
protected Dataset findDatasetOrDie(String id) throws WrappedResponse {
return findDatasetOrDie(id, false);
}
protected Dataset findDatasetOrDie(String id, boolean deep) throws WrappedResponse {
Long datasetId;
Dataset dataset;
if (isNumeric(id)) {
try {
datasetId = Long.parseLong(id);
} catch (NumberFormatException nfe) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.dataset.error.dataset.not.found.bad.id", Collections.singletonList(id))));
}
} else {
String persistentId = id;
if (id.equals(PERSISTENT_ID_KEY)) {
persistentId = getRequestParameter(PERSISTENT_ID_KEY.substring(1));
if (persistentId == null) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.dataset.error.dataset_id_is_null", Collections.singletonList(PERSISTENT_ID_KEY.substring(1)))));
}
}
GlobalId globalId;
try {
globalId = PidUtil.parseAsGlobalID(persistentId);
} catch (IllegalArgumentException e) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.dataset.error.dataset.not.found.bad.id", Collections.singletonList(persistentId))));
}
datasetId = dvObjSvc.findIdByGlobalId(globalId, DvObject.DType.Dataset);
if (datasetId == null) {
datasetId = dvObjSvc.findIdByAltGlobalId(globalId, DvObject.DType.Dataset);
}
if (datasetId == null) {
if (FeatureFlags.ENABLE_PID_FAILURE_LOG.enabled()) {
FailedPIDResolutionLoggingServiceBean.FailedPIDResolutionEntry entry = new FailedPIDResolutionEntry(persistentId, httpRequest.getRequestURI(), httpRequest.getMethod(), new DataverseRequest(null, httpRequest).getSourceAddress());
fprLogService.logEntry(entry);
}
throw new WrappedResponse(
notFound(BundleUtil.getStringFromBundle("find.dataset.error.dataset_id_is_null", Collections.singletonList(PERSISTENT_ID_KEY.substring(1)))));
}
}
if (deep) {
dataset = datasetSvc.findDeep(datasetId);
} else {
dataset = datasetSvc.find(datasetId);
}
if (dataset == null) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.dataset.error.dataset.not.found.id", Collections.singletonList(id))));
}
return dataset;
}
/** Find a dataset but filter according to the visibility from the locallyFAIRRoleAssignments
*
* @param id - the dataset identifier
* @param req - the DataverseRequest
* @param deep - whether to perform a deep search
* @return the dataset if found and visible, otherwise throws WrappedResponse
* @throws WrappedResponse if dataset is not found (in findDatasetOrDie()) or not visible
*/
protected Dataset findDatasetUserCanSeeOrDie(String id, DataverseRequest req, boolean deep) throws WrappedResponse {
Dataset dataset = findDatasetOrDie(id, deep);
if (dataset.isLocallyFAIR() && !permissionSvc.hasLocallyFAIRAccess(req, dataset)) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.dataset.error.dataset.not.found.id", Collections.singletonList(id))));
}
return dataset;
}
protected DatasetVersion findDatasetVersionOrDie(final DataverseRequest req, String versionNumber, final Dataset ds, boolean includeDeaccessioned, boolean checkPermsWhenDeaccessioned) throws WrappedResponse {
DatasetVersion dsv = execCommand(handleVersion(versionNumber, new Datasets.DsVersionHandler<Command<DatasetVersion>>() {
@Override
public Command<DatasetVersion> handleLatest() {
return new GetLatestAccessibleDatasetVersionCommand(req, ds, includeDeaccessioned, checkPermsWhenDeaccessioned);
}
@Override
public Command<DatasetVersion> handleDraft() {
return new GetDraftDatasetVersionCommand(req, ds);
}
@Override
public Command<DatasetVersion> handleSpecific(long major, long minor) {
return new GetSpecificPublishedDatasetVersionCommand(req, ds, major, minor, includeDeaccessioned, checkPermsWhenDeaccessioned);
}
@Override
public Command<DatasetVersion> handleLatestPublished() {
return new GetLatestPublishedDatasetVersionCommand(req, ds, includeDeaccessioned, checkPermsWhenDeaccessioned);
}
}));
return dsv;
}
protected void validateInternalTimestampIsNotOutdated(DvObject dvObject, String sourceLastUpdateTime) throws WrappedResponse {
// The timestamp string must always be in UTC, ISO 8601-formatted
// for example: 2026-04-22T14:30:00Z. This is explicitly specified in the
// API guide.
//
// In the intended workflow, the clients will be reusing the last update
// timestamps obtained from the output of other Dataverse APIs, such as
// /versions and /files, where they are always in that form, regardless
// of the actual time zone the server lives in.
//
// For consistency, we do not want to accept any other formats or timezones,
// and will reject anything that does not match "yyyy-MM-dd'T'HH:mm:ss'Z'".
// For that reason there is an explicit check added for .endsWith("Z").
// The "X" in the parsing format string will recognize literal 'Z' as "+0000",
// but it would also accept other ISO 8601 timezones, such as "+0400" for
// EDT, etc. In theory, we could accept all these other notations - in
// case the client decided to convert the UTC timestamp they received from
// Dataverse into that... but there is really no good reason to encourage
// that.
Date date = sourceLastUpdateTime != null && sourceLastUpdateTime.endsWith("Z")
? DateUtil.parseDate(sourceLastUpdateTime, "yyyy-MM-dd'T'HH:mm:ssX")
: null;
if (date == null) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("jsonparser.error.parsing.date", Collections.singletonList(sourceLastUpdateTime)))
);
}
Instant instant = date.toInstant();
Instant updateTimestamp =
(dvObject instanceof DataFile) ? ((DataFile) dvObject).getFileMetadata().getDatasetVersion().getLastUpdateTime().toInstant() :
(dvObject instanceof Dataset) ? ((Dataset) dvObject).getLatestVersion().getLastUpdateTime().toInstant() :
instant;
// granularity is to the second since the json output only returns dates in this format to the second
if (updateTimestamp.getEpochSecond() != instant.getEpochSecond()) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("abstractApiBean.error.internalVersionTimestampIsOutdated", Collections.singletonList(sourceLastUpdateTime)))
);
}
}
protected DataFile findDataFileOrDie(String id) throws WrappedResponse {
DataFile datafile;
if (id.equals(PERSISTENT_ID_KEY)) {
String persistentId = getRequestParameter(PERSISTENT_ID_KEY.substring(1));
if (persistentId == null) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.dataset.error.dataset_id_is_null", Collections.singletonList(PERSISTENT_ID_KEY.substring(1)))));
}
datafile = fileService.findByGlobalId(persistentId);
if (datafile == null) {
if (FeatureFlags.ENABLE_PID_FAILURE_LOG.enabled()) {
FailedPIDResolutionLoggingServiceBean.FailedPIDResolutionEntry entry = new FailedPIDResolutionEntry(persistentId, httpRequest.getRequestURI(), httpRequest.getMethod(), new DataverseRequest(null, httpRequest).getSourceAddress());
fprLogService.logEntry(entry);
}
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.datafile.error.dataset.not.found.persistentId", Collections.singletonList(persistentId))));
}
return datafile;
} else {
try {
datafile = fileService.find(Long.parseLong(id));
if (datafile == null) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.datafile.error.datafile.not.found.id", Collections.singletonList(id))));
}
return datafile;
} catch (NumberFormatException nfe) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.datafile.error.datafile.not.found.bad.id", Collections.singletonList(id))));
}
}
}
/** Find a datafile but filter according to the visibility from the locallyFAIRRoleAssignments
*
* @param id - the datafile identifier
* @param req - the DataverseRequest
* @return the datafile if found and visible, otherwise throws WrappedResponse
* @throws WrappedResponse if datafile is not found (in findDatasetOrDie()) or not visible
*/
protected DataFile findDataFileUserCanSeeOrDie(String id, DataverseRequest req) throws WrappedResponse {
DataFile dataFile = findDataFileOrDie(id);
if (dataFile.isLocallyFAIR() && !permissionSvc.hasLocallyFAIRAccess(req, dataFile)) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.datafile.error.datafile.not.found.id", Collections.singletonList(id))));
}
return dataFile;
}
protected DataverseRole findRoleOrDie(String id) throws WrappedResponse {
DataverseRole role;
if (id.equals(ALIAS_KEY)) {
String alias = getRequestParameter(ALIAS_KEY.substring(1));
try {
return em.createNamedQuery("DataverseRole.findDataverseRoleByAlias", DataverseRole.class)
.setParameter("alias", alias)
.getSingleResult();
//Should not be a multiple result exception due to table constraint
} catch (NoResultException nre) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.dataverse.role.error.role.not.found.alias", Collections.singletonList(alias))));
}
} else {
try {
role = rolesSvc.find(Long.parseLong(id));
if (role == null) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.dataverse.role.error.role.not.found.id", Collections.singletonList(id))));
} else {
return role;
}
} catch (NumberFormatException nfe) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.dataverse.role.error.role.not.found.bad.id", Collections.singletonList(id))));
}
}
}
protected DatasetLinkingDataverse findDatasetLinkingDataverseOrDie(String datasetId, String linkingDataverseId) throws WrappedResponse {
DatasetLinkingDataverse dsld;
Dataverse linkingDataverse = findDataverseOrDie(linkingDataverseId);
if (datasetId.equals(PERSISTENT_ID_KEY)) {
String persistentId = getRequestParameter(PERSISTENT_ID_KEY.substring(1));
if (persistentId == null) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.dataset.error.dataset_id_is_null", Collections.singletonList(PERSISTENT_ID_KEY.substring(1)))));
}
Dataset dataset = datasetSvc.findByGlobalId(persistentId);
if (dataset == null) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.dataset.error.dataset.not.found.persistentId", Collections.singletonList(persistentId))));
}
datasetId = dataset.getId().toString();
}
try {
dsld = dsLinkingService.findDatasetLinkingDataverse(Long.parseLong(datasetId), linkingDataverse.getId());
if (dsld == null) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.datasetlinking.error.not.found.ids", Arrays.asList(datasetId, linkingDataverse.getId().toString()))));
}
return dsld;
} catch (NumberFormatException nfe) {
throw new WrappedResponse(
badRequest(BundleUtil.getStringFromBundle("find.datasetlinking.error.not.found.bad.ids", Arrays.asList(datasetId, linkingDataverse.getId().toString()))));
}
}
protected DataverseRequest createDataverseRequest( User u ) {
return new DataverseRequest(u, httpRequest);
}
protected Dataverse findDataverse( String idtf ) {
return isNumeric(idtf) ? dataverseSvc.find(Long.parseLong(idtf))
: dataverseSvc.findByAlias(idtf);
}
protected DvObject findDvo( Long id ) {
return em.createNamedQuery("DvObject.findById", DvObject.class)
.setParameter("id", id)
.getSingleResult();
}
/**
* Tries to find a DvObject. If the passed id can be interpreted as a number,
* it tries to get the DvObject by its id. Else, it tries to get a {@link Dataverse}
* with that alias. If that fails, tries to get a {@link Dataset} with that global id.
* @param id a value identifying the DvObject, either numeric of textual.
* @return A DvObject, or {@code null}
* @throws WrappedResponse
*/
@NotNull
protected DvObject findDvo(@NotNull final String id) throws WrappedResponse {
DvObject d = null;
if (isNumeric(id)) {
d = findDvo(Long.valueOf(id));
} else {
d = dataverseSvc.findByAlias(id);
}
if (d == null) {
return findDatasetOrDie(id);
}
return d;
}
/**
*
* @param dvIdtf
* @param type
* @param testForReleased
* @return DvObject if type matches or throw exception
* @throws WrappedResponse
*/
@NotNull
protected DvObject findDvoByIdAndTypeOrDie(@NotNull final String dvIdtf, String type, boolean testForReleased) throws WrappedResponse {
try {
DataverseFeaturedItem.TYPES dvType = DataverseFeaturedItem.getDvType(type);
DvObject dvObject = null;
if (isNumeric(dvIdtf)) {
try {
dvObject = findDvo(Long.valueOf(dvIdtf));
} catch (Exception e) {
throw new WrappedResponse(error(Response.Status.BAD_REQUEST,BundleUtil.getStringFromBundle("find.dvo.error.dvObjectNotFound", Arrays.asList(dvIdtf))));
}
}
if (dvObject == null) {
List<DataverseFeaturedItem.TYPES> types = new ArrayList<>();
types.addAll(List.of(DataverseFeaturedItem.TYPES.values()));
types.remove(dvType);
types.add(0, dvType); // put the requested type first for speed of lookup
for (DataverseFeaturedItem.TYPES t : types) {
try {
if (DataverseFeaturedItem.TYPES.DATAVERSE == t) {
dvObject = findDataverseOrDie(dvIdtf);
break;
} else if (DataverseFeaturedItem.TYPES.DATASET == t) {
dvObject = findDatasetOrDie(dvIdtf);
break;
} else if (DataverseFeaturedItem.TYPES.DATAFILE == t) {
dvObject = findDataFileOrDie(dvIdtf);
break;
}
} catch (WrappedResponse e) {
// ignore errors to allow other find*OrDie to be called
}
}
}
if (testForReleased){
DataverseFeaturedItem.validateTypeAndDvObject(dvIdtf, dvObject, dvType);
}
if (dvObject == null) {
throw new WrappedResponse(notFound(BundleUtil.getStringFromBundle("find.dvo.error.dvObjectNotFound", Collections.singletonList(dvIdtf))));
}
return dvObject;
} catch (IllegalArgumentException e) {
throw new WrappedResponse(error(Response.Status.BAD_REQUEST, e.getMessage()));
}
}
protected <T> T failIfNull( T t, String errorMessage ) throws WrappedResponse {
if ( t != null ) return t;
throw new WrappedResponse( error( Response.Status.BAD_REQUEST,errorMessage) );
}
protected MetadataBlock findMetadataBlock(Long id) {
return metadataBlockSvc.findById(id);
}
protected MetadataBlock findMetadataBlock(String idtf) throws NumberFormatException {
return metadataBlockSvc.findByName(idtf);
}
protected DatasetFieldType findDatasetFieldType(String idtf) throws NumberFormatException {
return isNumeric(idtf) ? datasetFieldSvc.find(Long.parseLong(idtf))
: datasetFieldSvc.findByNameOpt(idtf);
}
/**
* Gets role assignment history for a DvObject (Dataset, Dataverse, or DataFile)
*
* @param dvObject The DvObject to get history for
* @param authenticatedUser The authenticated user making the request
* @param headers HTTP headers from the request (for content negotiation)
* @return Response containing history in JSON or CSV format
*/
protected Response getRoleAssignmentHistoryResponse(DvObject dvObject, AuthenticatedUser authenticatedUser, boolean forFiles, HttpHeaders headers) {
// Check if the user has permission to manage permissions for this object
if (!permissionSvc.userOn(authenticatedUser, dvObject).has(Permission.ManageDatasetPermissions)) {
return error(Status.FORBIDDEN, "You do not have permission to view the role assignment history for this " + dvObject.getClass().getSimpleName().toLowerCase());
}
// Get the role assignment history
List<DataverseRoleServiceBean.RoleAssignmentHistoryConsolidatedEntry> history = null;
if (forFiles == false) {
history = rolesSvc.getRoleAssignmentHistory(dvObject.getId());
} else {
history = rolesSvc.getFilesRoleAssignmentHistory(dvObject.getId());
}
List<MediaType> acceptedTypes = headers.getAcceptableMediaTypes();
boolean wantCSV = acceptedTypes.stream()
.anyMatch(mt -> mt.toString().equals("text/csv"));
if (wantCSV) {
//Reusing strings from history panel
String definedOn = BundleUtil.getStringFromBundle("dataverse.permissions.history.definedOn");
String assigneeHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.assignee");
String roleHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.role");
String assignedByHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.assignedBy");
String assignedAtHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.assignedAt");
String revokedByHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.revokedBy");
String revokedAtHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.revokedAt");
// Generate CSV response
StringBuilder csvBuilder = getHistoryCsvHeaderRow();
// Add data rows
for (DataverseRoleServiceBean.RoleAssignmentHistoryConsolidatedEntry entry : history) {
String definitionPointIds = entry.getDefinitionPointIdsAsString();
// Handle multiple comma-separated values in definitionPointIds column
if(definitionPointIds.contains(",")) {
definitionPointIds = "\"" + definitionPointIds + "\"";
}
csvBuilder.append(definitionPointIds).append(",")
.append(entry.getAssigneeIdentifier()).append(",")
.append(entry.getRoleName()).append(",")
.append(entry.getAssignedBy() != null ? entry.getAssignedBy() : "").append(",")
.append(entry.getAssignedAt() != null ? entry.getAssignedAt().toString() : "").append(",")
.append(entry.getRevokedBy() != null ? entry.getRevokedBy() : "").append(",")
.append(entry.getRevokedAt() != null ? entry.getRevokedAt().toString() : "")
.append("\n");
}
String objectType = dvObject.getClass().getSimpleName().toLowerCase();
return Response.ok()
.entity(csvBuilder.toString())
.type("text/csv")
.header("Content-Disposition", "attachment; filename=" + objectType + "_permissions_history.csv")
.build();
}
// Or Json by default
JsonArrayBuilder jsonArray = Json.createArrayBuilder();
for (DataverseRoleServiceBean.RoleAssignmentHistoryConsolidatedEntry entry : history) {
JsonObjectBuilder job = Json.createObjectBuilder()
.add("definedOn", entry.getDefinitionPointIdsAsString())
.add("assigneeIdentifier", entry.getAssigneeIdentifier())
.add("roleName", entry.getRoleName());
// Add assignment info if available
if (entry.getAssignedBy()!= null) {
job.add("assignedBy", entry.getAssignedBy());
} else {
job.add("assignedBy", JsonValue.NULL);
}
if (entry.getAssignedAt()!= null) {
job.add("assignedAt", entry.getAssignedAt().toString());
} else {
job.add("assignedAt", JsonValue.NULL);
}
// Add revocation info if available
if (entry.getRevokedBy() != null) {
job.add("revokedBy", entry.getRevokedBy());
} else {
job.add("revokedBy", JsonValue.NULL);
}
if (entry.getRevokedAt() != null) {
job.add("revokedAt", entry.getRevokedAt().toString());
} else {
job.add("revokedAt", JsonValue.NULL);
}
jsonArray.add(job);
}
return ok(jsonArray);
}
static StringBuilder getHistoryCsvHeaderRow() {
// Reusing strings from history panel
String definedOn = BundleUtil.getStringFromBundle("dataverse.permissions.history.definedOn");
String assigneeHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.assignee");
String roleHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.role");
String assignedByHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.assignedBy");
String assignedAtHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.assignedAt");
String revokedByHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.revokedBy");
String revokedAtHeader = BundleUtil.getStringFromBundle("dataverse.permissions.history.revokedAt");
// Generate CSV response
StringBuilder csvBuilder = new StringBuilder();
// Add CSV header with internationalized column names
csvBuilder
.append(definedOn).append(",")
.append(assigneeHeader).append(",")
.append(roleHeader).append(",")
.append(assignedByHeader).append(",")
.append(assignedAtHeader).append(",")
.append(revokedByHeader).append(",")
.append(revokedAtHeader).append("\n");
return csvBuilder;
}
/* =================== *\
* Command Execution *
\* =================== */
/**
* Executes a command, and returns the appropriate result/HTTP response.
* @param <T> Return type for the command
* @param cmd The command to execute.
* @return Value from the command
* @throws edu.harvard.iq.dataverse.api.AbstractApiBean.WrappedResponse Unwrap and return.
* @see #response(java.util.concurrent.Callable)
*/
protected <T> T execCommand( Command<T> cmd ) throws WrappedResponse {
try {
return engineSvc.submit(cmd);
} catch (RateLimitCommandException ex) {
throw new WrappedResponse(rateLimited(ex.getMessage()));
} catch (IllegalCommandException ex) {
//for 8859 for api calls that try to update datasets with TOA out of compliance
if (ex.getMessage().toLowerCase().contains("terms of use")){
throw new WrappedResponse(ex, conflict(ex.getMessage()));
}
throw new WrappedResponse( ex, forbidden(ex.getMessage() ) );
} catch (PermissionException ex) {
/**
* TODO Is there any harm in exposing ex.getLocalizedMessage()?
* There's valuable information in there that can help people reason
* about permissions! The formatting of the error would need to be
* cleaned up but here's an example the helpful information:
*
* "User :guest is not permitted to perform requested action.Can't
* execute command
* edu.harvard.iq.dataverse.engine.command.impl.MoveDatasetCommand@50b150d9,
* because request [DataverseRequest user:[GuestUser
* :guest]@127.0.0.1] is missing permissions [AddDataset,
* PublishDataset] on Object mra"
*
* Right now, the error that's visible via API (and via GUI
* sometimes?) doesn't have much information in it:
*
* "User @jsmith is not permitted to perform requested action."
*
* Update (11/11/2024):
*
* An {@code isDetailedMessageRequired} flag has been added to {@code PermissionException} to selectively return more
* specific error messages when the generic message (e.g. "User :guest is not permitted to perform requested action")
* lacks sufficient context. This approach aims to provide valuable permission-related details in cases where it
* could help users better understand their permission issues without exposing unnecessary internal information.
*/
if (ex.isDetailedMessageRequired()) {
throw new WrappedResponse(error(Response.Status.UNAUTHORIZED, ex.getMessage()));
} else {
throw new WrappedResponse(error(Response.Status.UNAUTHORIZED,
"User " + cmd.getRequest().getUser().getIdentifier() + " is not permitted to perform requested action."));
}
} catch (InvalidFieldsCommandException ex) {
throw new WrappedResponse(ex, badRequest(ex.getMessage(), ex.getFieldErrors()));
} catch (InvalidCommandArgumentsException ex) {
throw new WrappedResponse(ex, error(Status.BAD_REQUEST, ex.getMessage()));
} catch (ConflictException ex) {
throw new WrappedResponse(ex, conflict(ex.getMessage()));
} catch (CommandException ex) {
Logger.getLogger(AbstractApiBean.class.getName()).log(Level.SEVERE, "Error while executing command " + cmd, ex);
throw new WrappedResponse(ex, error(Status.INTERNAL_SERVER_ERROR, ex.getMessage()));
}
}
/**
* A syntactically nicer way of using {@link #execCommand(edu.harvard.iq.dataverse.engine.command.Command)}.
* @param hdl The block to run.
* @return HTTP Response appropriate for the way {@code hdl} executed.
*/
protected Response response( Callable<Response> hdl ) {