Examples with Network org.obiba.mica.network.domain.Network used on opensource projects

Example 6 with Network

use of org.obiba.mica.network.domain.Network in project mica2 by obiba.

the class NetworkQuery method getStudyCountsByNetwork.

public Map<String, List<String>> getStudyCountsByNetwork() {
    Map<String, List<String>> map = Maps.newHashMap();
    if (!micaConfigService.getConfig().isNetworkEnabled())
        return map;
    Properties props = new Properties();
    props.setProperty("id", "");
    Properties subProps = new Properties();
    subProps.setProperty(JOIN_FIELD, "");
    Map<String, Properties> subAggregations = Maps.newHashMap();
    subAggregations.put("id", subProps);
    try {
        Searcher.DocumentResults results = searcher.cover(getSearchIndex(), getSearchType(), getQuery(), props, subAggregations, null);
        results.getAggregations().stream().filter(agg -> "terms".equals(agg.getType())).forEach(aggregation -> aggregation.asTerms().getBuckets().stream().filter(bucket -> bucket.getDocCount() > 0).forEach(bucket -> map.put(bucket.getKeyAsString(), getStudyCounts(bucket.getAggregations()))));
    } catch (Exception e) {
        log.warn("Study counts by network failed", e);
    }
    return map;
}

Example 7 with Network

use of org.obiba.mica.network.domain.Network in project mica2 by obiba.

the class NetworkQuery method processHits.

@Override
public void processHits(QueryResultDto.Builder builder, Searcher.DocumentResults results, QueryScope scope, CountStatsData counts) throws IOException {
    NetworkResultDto.Builder resBuilder = NetworkResultDto.newBuilder();
    NetworkCountStatsBuilder networkCountStatsBuilder = counts == null ? null : NetworkCountStatsBuilder.newBuilder(counts);
    Consumer<Network> addDto = networkConsumer(scope, resBuilder, networkCountStatsBuilder);
    List<Network> networks = Lists.newArrayList();
    for (Searcher.DocumentResult result : results.getDocuments()) {
        if (result.hasSource())
            networks.add(objectMapper.readValue(result.getSourceInputStream(), Network.class));
    }
    networks.forEach(addDto);
    builder.setExtension(NetworkResultDto.result, resBuilder.build());
}

Example 8 with Network

use of org.obiba.mica.network.domain.Network in project mica2 by obiba.

the class NetworkService method publish.

/**
 * Set the publication flag on a {@link Network}.
 *
 * @param id
 * @throws NoSuchNetworkException
 */
@Caching(evict = { @CacheEvict(value = "aggregations-metadata", key = "'network'") })
public void publish(@NotNull String id, boolean publish, PublishCascadingScope cascadingScope) throws NoSuchEntityException {
    Network network = networkRepository.findOne(id);
    if (network == null)
        return;
    if (publish) {
        processNetworkForPublishedNumberOfStudies(network);
        publishState(id);
        eventBus.post(new NetworkPublishedEvent(network, getCurrentUsername(), cascadingScope));
    } else {
        unPublishState(id);
        eventBus.post(new NetworkUnpublishedEvent(network));
    }
}

Example 9 with Network

use of org.obiba.mica.network.domain.Network in project mica2 by obiba.

the class NetworkDtos method asDtoBuilder.

@NotNull
Mica.NetworkDto.Builder asDtoBuilder(@NotNull Network network, boolean asDraft) {
    Mica.NetworkDto.Builder builder = Mica.NetworkDto.newBuilder();
    if (network.hasModel())
        builder.setContent(JSONUtils.toJSON(network.getModel()));
    // 
    builder.setId(network.getId()).addAllName(// 
    localizedStringDtos.asDto(network.getName())).addAllDescription(// 
    localizedStringDtos.asDto(network.getDescription())).addAllAcronym(localizedStringDtos.asDto(network.getAcronym()));
    Mica.PermissionsDto permissionsDto = permissionsDtos.asDto(network);
    NetworkState networkState = networkService.getEntityState(network.getId());
    builder.setPublished(networkState.isPublished());
    if (asDraft) {
        // 
        builder.setTimestamps(TimestampsDtos.asDto(network)).setPublished(// 
        networkState.isPublished()).setExtension(Mica.EntityStateDto.state, entityStateDtos.asDto(networkState).setPermissions(permissionsDto).build());
    }
    builder.setPermissions(permissionsDto);
    List<String> roles = micaConfigService.getConfig().getRoles();
    if (network.getMemberships() != null) {
        List<Mica.MembershipsDto> memberships = network.getMemberships().entrySet().stream().filter(e -> roles.contains(e.getKey())).map(e -> Mica.MembershipsDto.newBuilder().setRole(e.getKey()).addAllMembers(e.getValue().stream().map(m -> personDtos.asDto(m.getPerson(), asDraft)).collect(toList())).build()).collect(toList());
        builder.addAllMemberships(memberships);
    }
    List<BaseStudy> publishedStudies = publishedStudyService.findByIds(network.getStudyIds());
    Set<String> publishedStudyIds = publishedStudies.stream().map(AbstractGitPersistable::getId).collect(Collectors.toSet());
    Sets.SetView<String> unpublishedStudyIds = Sets.difference(ImmutableSet.copyOf(network.getStudyIds().stream().filter(sId -> asDraft && subjectAclService.isPermitted("/draft/individual-study", "VIEW", sId) || subjectAclService.isAccessible("/individual-study", sId)).collect(toList())), publishedStudyIds);
    if (!publishedStudies.isEmpty()) {
        Map<String, Long> datasetVariableCounts = asDraft ? null : datasetVariableService.getCountByStudyIds(Lists.newArrayList(publishedStudyIds));
        publishedStudies.forEach(study -> {
            builder.addStudyIds(study.getId());
            builder.addStudySummaries(studySummaryDtos.asDtoBuilder(study, true, datasetVariableCounts == null ? 0 : datasetVariableCounts.get(study.getId())));
        });
    }
    unpublishedStudyIds.forEach(studyId -> {
        try {
            builder.addStudySummaries(studySummaryDtos.asDto(studyId));
            builder.addStudyIds(studyId);
        } catch (NoSuchEntityException e) {
            log.warn("Study not found in network {}: {}", network.getId(), studyId);
        // ignore
        }
    });
    if (network.getLogo() != null) {
        builder.setLogo(attachmentDtos.asDto(network.getLogo()));
    }
    network.getNetworkIds().stream().filter(nId -> asDraft && subjectAclService.isPermitted("/draft/network", "VIEW", nId) || subjectAclService.isAccessible("/network", nId)).forEach(nId -> {
        try {
            builder.addNetworkSummaries(networkSummaryDtos.asDtoBuilder(nId, asDraft));
            builder.addNetworkIds(nId);
        } catch (NoSuchEntityException e) {
            log.warn("Network not found in network {}: {}", network.getId(), nId);
        // ignore
        }
    });
    return builder;
}

Example 10 with Network

use of org.obiba.mica.network.domain.Network in project mica2 by obiba.

the class NetworkDtos method fromDto.

@NotNull
Network fromDto(@NotNull Mica.NetworkDtoOrBuilder dto) {
    Network network = new Network();
    if (dto.hasId()) {
        network.setId(dto.getId());
    }
    network.setName(localizedStringDtos.fromDto(dto.getNameList()));
    network.setDescription(localizedStringDtos.fromDto(dto.getDescriptionList()));
    network.setAcronym(localizedStringDtos.fromDto(dto.getAcronymList()));
    if (dto.getMembershipsCount() > 0) {
        Map<String, List<Membership>> memberships = Maps.newHashMap();
        dto.getMembershipsList().forEach(e -> memberships.put(e.getRole(), e.getMembersList().stream().map(p -> new Membership(personDtos.fromDto(p), e.getRole())).collect(toList())));
        network.setMemberships(memberships);
    }
    if (dto.getStudyIdsCount() > 0) {
        dto.getStudyIdsList().forEach(network::addStudyId);
    }
    if (dto.getAttachmentsCount() > 0) {
        dto.getAttachmentsList().stream().filter(Mica.AttachmentDto::getJustUploaded).findFirst().ifPresent(a -> network.setLogo(attachmentDtos.fromDto(a)));
    }
    if (dto.hasLogo()) {
        network.setLogo(attachmentDtos.fromDto(dto.getLogo()));
    }
    if (dto.getNetworkIdsCount() > 0) {
        network.setNetworkIds(Lists.newArrayList(Sets.newHashSet(dto.getNetworkIdsList())));
    }
    if (dto.hasContent() && !Strings.isNullOrEmpty(dto.getContent()))
        network.setModel(JSONUtils.toMap(dto.getContent()));
    else
        network.setModel(new HashMap<>());
    return network;
}