Examples with AuthenticatedUser edu.harvard.iq.dataverse.authorization.users.AuthenticatedUser used on opensource projects

Example 6 with AuthenticatedUser

use of edu.harvard.iq.dataverse.authorization.users.AuthenticatedUser in project dataverse by IQSS.

the class DatasetVersionServiceBean method getContributorsNames.

public String getContributorsNames(DatasetVersion version) {
    String contNames = "";
    for (String id : version.getVersionContributorIdentifiers()) {
        id = id.startsWith("@") ? id.substring(1) : id;
        AuthenticatedUser au = authService.getAuthenticatedUser(id);
        if (au != null) {
            if (contNames.isEmpty()) {
                contNames = au.getName();
            } else {
                contNames = contNames + ", " + au.getName();
            }
        }
    }
    return contNames;
}

Example 7 with AuthenticatedUser

use of edu.harvard.iq.dataverse.authorization.users.AuthenticatedUser in project dataverse by IQSS.

the class DataFileServiceBean method findFileMetadataOptimizedExperimental.

public void findFileMetadataOptimizedExperimental(Dataset owner, DatasetVersion requestedVersion) {
    List<DataFile> dataFiles = new ArrayList<>();
    List<DataTable> dataTables = new ArrayList<>();
    // List<FileMetadata> retList = new ArrayList<>();
    // TODO:
    // replace these maps with simple lists and run binary search on them. -- 4.2.1
    Map<Long, AuthenticatedUser> userMap = new HashMap<>();
    Map<Long, Integer> filesMap = new HashMap<>();
    Map<Long, Integer> datatableMap = new HashMap<>();
    Map<Long, Integer> categoryMap = new HashMap<>();
    Map<Long, Set<Integer>> fileTagMap = new HashMap<>();
    List<String> fileTagLabels = DataFileTag.listTags();
    int i = 0;
    List<Object[]> dataTableResults = em.createNativeQuery("SELECT t0.ID, t0.DATAFILE_ID, t0.UNF, t0.CASEQUANTITY, t0.VARQUANTITY, t0.ORIGINALFILEFORMAT FROM dataTable t0, dataFile t1, dvObject t2 WHERE ((t0.DATAFILE_ID = t1.ID) AND (t1.ID = t2.ID) AND (t2.OWNER_ID = " + owner.getId() + ")) ORDER BY t0.ID").getResultList();
    for (Object[] result : dataTableResults) {
        DataTable dataTable = new DataTable();
        long fileId = ((Number) result[1]).longValue();
        dataTable.setId(((Number) result[1]).longValue());
        dataTable.setUnf((String) result[2]);
        dataTable.setCaseQuantity((Long) result[3]);
        dataTable.setVarQuantity((Long) result[4]);
        dataTable.setOriginalFileFormat((String) result[5]);
        dataTables.add(dataTable);
        datatableMap.put(fileId, i++);
    }
    logger.fine("Retrieved " + dataTables.size() + " DataTable objects.");
    i = 0;
    List<Object[]> dataTagsResults = em.createNativeQuery("SELECT t0.DATAFILE_ID, t0.TYPE FROM DataFileTag t0, dvObject t1 WHERE (t1.ID = t0.DATAFILE_ID) AND (t1.OWNER_ID=" + owner.getId() + ")").getResultList();
    for (Object[] result : dataTagsResults) {
        Long datafile_id = (Long) result[0];
        Integer tagtype_id = (Integer) result[1];
        if (fileTagMap.get(datafile_id) == null) {
            fileTagMap.put(datafile_id, new HashSet<>());
        }
        fileTagMap.get(datafile_id).add(tagtype_id);
        i++;
    }
    dataTagsResults = null;
    logger.fine("Retrieved " + i + " data tags.");
    i = 0;
    List<Object[]> fileResults = em.createNativeQuery("SELECT t0.ID, t0.CREATEDATE, t0.INDEXTIME, t0.MODIFICATIONTIME, t0.PERMISSIONINDEXTIME, t0.PERMISSIONMODIFICATIONTIME, t0.PUBLICATIONDATE, t0.CREATOR_ID, t0.RELEASEUSER_ID, t1.CONTENTTYPE, t0.STORAGEIDENTIFIER, t1.FILESIZE, t1.INGESTSTATUS, t1.CHECKSUMVALUE, t1.RESTRICTED, t1.CHECKSUMTYPE, t1.PREVIOUSDATAFILEID, t1.ROOTDATAFILEID FROM DVOBJECT t0, DATAFILE t1 WHERE ((t0.OWNER_ID = " + owner.getId() + ") AND ((t1.ID = t0.ID) AND (t0.DTYPE = 'DataFile'))) ORDER BY t0.ID").getResultList();
    for (Object[] result : fileResults) {
        Integer file_id = (Integer) result[0];
        DataFile dataFile = new DataFile();
        dataFile.setMergeable(false);
        dataFile.setId(file_id.longValue());
        Timestamp createDate = (Timestamp) result[1];
        Timestamp indexTime = (Timestamp) result[2];
        Timestamp modificationTime = (Timestamp) result[3];
        Timestamp permissionIndexTime = (Timestamp) result[4];
        Timestamp permissionModificationTime = (Timestamp) result[5];
        Timestamp publicationDate = (Timestamp) result[6];
        dataFile.setCreateDate(createDate);
        dataFile.setIndexTime(indexTime);
        dataFile.setModificationTime(modificationTime);
        dataFile.setPermissionIndexTime(permissionIndexTime);
        dataFile.setPermissionModificationTime(permissionModificationTime);
        dataFile.setPublicationDate(publicationDate);
        Long creatorId = (Long) result[7];
        if (creatorId != null) {
            AuthenticatedUser creator = userMap.get(creatorId);
            if (creator == null) {
                creator = userService.find(creatorId);
                if (creator != null) {
                    userMap.put(creatorId, creator);
                }
            }
            if (creator != null) {
                dataFile.setCreator(creator);
            }
        }
        dataFile.setOwner(owner);
        Long releaseUserId = (Long) result[8];
        if (releaseUserId != null) {
            AuthenticatedUser releaseUser = userMap.get(releaseUserId);
            if (releaseUser == null) {
                releaseUser = userService.find(releaseUserId);
                if (releaseUser != null) {
                    userMap.put(releaseUserId, releaseUser);
                }
            }
            if (releaseUser != null) {
                dataFile.setReleaseUser(releaseUser);
            }
        }
        String contentType = (String) result[9];
        if (contentType != null) {
            dataFile.setContentType(contentType);
        }
        String storageIdentifier = (String) result[10];
        if (storageIdentifier != null) {
            dataFile.setStorageIdentifier(storageIdentifier);
        }
        Long fileSize = (Long) result[11];
        if (fileSize != null) {
            dataFile.setFilesize(fileSize);
        }
        if (result[12] != null) {
            String ingestStatusString = (String) result[12];
            dataFile.setIngestStatus(ingestStatusString.charAt(0));
        }
        String md5 = (String) result[13];
        if (md5 != null) {
            dataFile.setChecksumValue(md5);
        }
        Boolean restricted = (Boolean) result[14];
        if (restricted != null) {
            dataFile.setRestricted(restricted);
        }
        String checksumType = (String) result[15];
        if (checksumType != null) {
            try {
                // In the database we store "SHA1" rather than "SHA-1".
                DataFile.ChecksumType typeFromStringInDatabase = DataFile.ChecksumType.valueOf(checksumType);
                dataFile.setChecksumType(typeFromStringInDatabase);
            } catch (IllegalArgumentException ex) {
                logger.info("Exception trying to convert " + checksumType + " to enum: " + ex);
            }
        }
        Long previousDataFileId = (Long) result[16];
        if (previousDataFileId != null) {
            dataFile.setPreviousDataFileId(previousDataFileId);
        }
        Long rootDataFileId = (Long) result[17];
        if (rootDataFileId != null) {
            dataFile.setRootDataFileId(rootDataFileId);
        }
        if (datatableMap.get(dataFile.getId()) != null) {
            dataTables.get(datatableMap.get(dataFile.getId())).setDataFile(dataFile);
            dataFile.setDataTable(dataTables.get(datatableMap.get(dataFile.getId())));
        }
        if (fileTagMap.get(dataFile.getId()) != null) {
            for (Integer tag_id : fileTagMap.get(dataFile.getId())) {
                DataFileTag tag = new DataFileTag();
                tag.setTypeByLabel(fileTagLabels.get(tag_id));
                tag.setDataFile(dataFile);
                dataFile.addTag(tag);
            }
        }
        dataFile.setFileAccessRequesters(retrieveFileAccessRequesters(dataFile));
        dataFiles.add(dataFile);
        filesMap.put(dataFile.getId(), i++);
    }
    fileResults = null;
    logger.fine("Retrieved and cached " + i + " datafiles.");
    i = 0;
    for (DataFileCategory fileCategory : owner.getCategories()) {
        // logger.fine("category: id="+fileCategory.getId());
        categoryMap.put(fileCategory.getId(), i++);
    }
    logger.fine("Retrieved " + i + " file categories attached to the dataset.");
    if (requestedVersion != null) {
        requestedVersion.setFileMetadatas(retrieveFileMetadataForVersion(owner, requestedVersion, dataFiles, filesMap, categoryMap));
    } else {
        for (DatasetVersion version : owner.getVersions()) {
            version.setFileMetadatas(retrieveFileMetadataForVersion(owner, version, dataFiles, filesMap, categoryMap));
            logger.fine("Retrieved " + version.getFileMetadatas().size() + " filemetadatas for the version " + version.getId());
        }
    }
    owner.setFiles(dataFiles);
}

Example 8 with AuthenticatedUser

use of edu.harvard.iq.dataverse.authorization.users.AuthenticatedUser in project dataverse by IQSS.

the class ApiTokenPage method getApiToken.

public String getApiToken() {
    if (session.getUser().isAuthenticated()) {
        AuthenticatedUser au = (AuthenticatedUser) session.getUser();
        apiToken = authSvc.findApiTokenByUser(au);
        if (apiToken != null) {
            return apiToken.getTokenString();
        } else {
            List<String> arguments = new ArrayList<>();
            arguments.add(au.getName());
            return BundleUtil.getStringFromBundle("apitoken.notFound", arguments);
        }
    } else {
        // It should be impossible to get here from the UI.
        return "Only authenticated users can have API tokens.";
    }
}

Example 9 with AuthenticatedUser

use of edu.harvard.iq.dataverse.authorization.users.AuthenticatedUser in project dataverse by IQSS.

the class ApiTokenPage method checkForApiToken.

public boolean checkForApiToken() {
    if (session.getUser().isAuthenticated()) {
        AuthenticatedUser au = (AuthenticatedUser) session.getUser();
        apiToken = authSvc.findApiTokenByUser(au);
        if (apiToken != null) {
            return true;
        }
    }
    return false;
}

Example 10 with AuthenticatedUser

use of edu.harvard.iq.dataverse.authorization.users.AuthenticatedUser in project dataverse by IQSS.

the class ApiTokenPage method generate.

public void generate() {
    if (session.getUser().isAuthenticated()) {
        AuthenticatedUser au = (AuthenticatedUser) session.getUser();
        apiToken = authSvc.findApiTokenByUser(au);
        if (apiToken != null) {
            authSvc.removeApiToken(au);
        }
        /**
         * @todo DRY! Stolen from BuiltinUsers API page
         */
        ApiToken newToken = new ApiToken();
        newToken.setTokenString(java.util.UUID.randomUUID().toString());
        newToken.setAuthenticatedUser(au);
        Calendar c = Calendar.getInstance();
        newToken.setCreateTime(new Timestamp(c.getTimeInMillis()));
        c.roll(Calendar.YEAR, 1);
        newToken.setExpireTime(new Timestamp(c.getTimeInMillis()));
        authSvc.save(newToken);
    }
}