Examples with ObservedSubject gov.nih.nci.ctd2.dashboard.model.ObservedSubject used on opensource projects

Example 6 with ObservedSubject

use of gov.nih.nci.ctd2.dashboard.model.ObservedSubject in project nci-ctd2-dashboard by CBIIT.

the class ObservationController method getBySubjectId.

private List<Observation> getBySubjectId(Integer subjectId, String role, Integer tier) {
    Subject subject = dashboardDao.getEntityById(Subject.class, subjectId);
    if (subject != null) {
        Set<Observation> observations = new HashSet<Observation>();
        for (ObservedSubject observedSubject : dashboardDao.findObservedSubjectBySubject(subject)) {
            ObservedSubjectRole observedSubjectRole = observedSubject.getObservedSubjectRole();
            String subjectRole = observedSubjectRole.getSubjectRole().getDisplayName();
            Integer observationTier = observedSubject.getObservation().getSubmission().getObservationTemplate().getTier();
            if ((role.equals("") || role.equals(subjectRole)) && (tier == 0 || tier == observationTier)) {
                observations.add(observedSubject.getObservation());
            }
        }
        List<Observation> list = new ArrayList<Observation>(observations);
        Collections.sort(list, new Comparator<Observation>() {

            @Override
            public int compare(Observation o1, Observation o2) {
                Integer tier2 = o2.getSubmission().getObservationTemplate().getTier();
                Integer tier1 = o1.getSubmission().getObservationTemplate().getTier();
                return tier2 - tier1;
            }
        });
        return list;
    } else {
        return new ArrayList<Observation>();
    }
}

Example 7 with ObservedSubject

use of gov.nih.nci.ctd2.dashboard.model.ObservedSubject in project nci-ctd2-dashboard by CBIIT.

the class SubjectResponse method createInstance.

private static SubjectResponse createInstance(final Subject subject, final Filter filter, DashboardDao dashboardDao) {
    int[] tierCount = new int[3];
    Set<Integer> set = new HashSet<Integer>();
    for (ObservedSubject observedSubject : dashboardDao.findObservedSubjectBySubject(subject)) {
        ObservedSubjectRole observedSubjectRole = observedSubject.getObservedSubjectRole();
        String subjectRole = observedSubjectRole.getSubjectRole().getDisplayName();
        if (filter.rolesIncluded.size() > 0 && !filter.rolesIncluded.contains(subjectRole))
            continue;
        ObservationTemplate observatinoTemplate = observedSubject.getObservation().getSubmission().getObservationTemplate();
        Integer observationTier = observatinoTemplate.getTier();
        String centerNameBrief = observatinoTemplate.getSubmissionCenter().getStableURL().substring(7);
        if (filter.centerIncluded.size() > 0 && !filter.centerIncluded.contains(centerNameBrief))
            continue;
        if ((Arrays.asList(filter.tiersIncluded).contains(observationTier))) {
            set.add(observedSubject.getObservation().getId());
            tierCount[observationTier.intValue() - 1]++;
            if (filter.limit > 0 && set.size() >= filter.limit) {
                break;
            }
        }
    }
    List<ObservationItem> observations = dashboardDao.findObservationInfo(new ArrayList<Integer>(set));
    Set<String> roles = new TreeSet<String>();
    for (int i = 0; i < observations.size(); i++) {
        for (SubjectItem sub : observations.get(i).subject_list) {
            if (sub.getName().equals(subject.getDisplayName())) {
                roles.add(sub.getRole());
                break;
            }
        }
    }
    String[] uris = observations.stream().map(x -> x.uri).toArray(String[]::new);
    SubjectResponse subjectResponse = new SubjectResponse(subject, uris, roles.toArray(new String[0]), tierCount);
    return subjectResponse;
}

Example 8 with ObservedSubject

use of gov.nih.nci.ctd2.dashboard.model.ObservedSubject in project nci-ctd2-dashboard by CBIIT.

the class ObservationController method getObservationsBySubmissionIdAndSubjuectId.

/*
     * For a given submission, tier is decided so there is point of further
     * specifiying tier.
     */
@Transactional
@RequestMapping(value = "bySubmissionAndSubject", method = { RequestMethod.GET, RequestMethod.POST }, headers = "Accept=application/json")
public ResponseEntity<String> getObservationsBySubmissionIdAndSubjuectId(@RequestParam("submissionId") Integer submissionId, @RequestParam("subjectId") Integer subjectId, @RequestParam(value = "role", required = false, defaultValue = "") String role) {
    HttpHeaders headers = new HttpHeaders();
    headers.add("Content-Type", "application/json; charset=utf-8");
    String summaryTemplate = null;
    Set<Observation> observations = new HashSet<Observation>();
    Subject subject = dashboardDao.getEntityById(Subject.class, subjectId);
    for (ObservedSubject observedSubject : dashboardDao.findObservedSubjectBySubject(subject)) {
        Observation observation = observedSubject.getObservation();
        Submission submission = observation.getSubmission();
        if (!submission.getId().equals(submissionId)) {
            continue;
        } else if (summaryTemplate == null) {
            summaryTemplate = submission.getObservationTemplate().getObservationSummary();
        }
        String subjectRole = observedSubject.getObservedSubjectRole().getSubjectRole().getDisplayName();
        if ((role.equals("") || role.equals(subjectRole))) {
            observations.add(observation);
        }
    }
    List<ObservationWithSummary> list = new ArrayList<ObservationWithSummary>();
    for (Observation observation : observations) {
        String expanded = dashboardDao.expandSummary(observation.getId(), summaryTemplate) + " (<a class='button-link' href='#" + observation.getStableURL() + "'>details &raquo;</a>)";
        list.add(new ObservationWithSummary(observation, expanded));
    }
    JSONSerializer jsonSerializer = new JSONSerializer().transform(new ImplTransformer(), Class.class).transform(new DateTransformer(), Date.class);
    return new ResponseEntity<String>(jsonSerializer.serialize(list), headers, HttpStatus.OK);
}

Example 9 with ObservedSubject

use of gov.nih.nci.ctd2.dashboard.model.ObservedSubject in project nci-ctd2-dashboard by CBIIT.

the class ObservationController method onePerSubmissionBySubjectId.

private List<ObservationWithCount> onePerSubmissionBySubjectId(Integer subjectId, String role, Integer tier) {
    Subject subject = dashboardDao.getEntityById(Subject.class, subjectId);
    if (subject != null) {
        Map<Integer, Integer> submissionIds = new HashMap<Integer, Integer>();
        Map<Integer, Observation> observations = new HashMap<Integer, Observation>();
        for (ObservedSubject observedSubject : dashboardDao.findObservedSubjectBySubject(subject)) {
            Observation observation = observedSubject.getObservation();
            Submission submission = observation.getSubmission();
            Integer submissionId = submission.getId();
            ObservedSubjectRole observedSubjectRole = observedSubject.getObservedSubjectRole();
            String subjectRole = observedSubjectRole.getSubjectRole().getDisplayName();
            Integer observationTier = observedSubject.getObservation().getSubmission().getObservationTemplate().getTier();
            if ((role.equals("") || role.equals(subjectRole)) && (tier == 0 || tier == observationTier)) {
                if (!submissionIds.containsKey(submissionId)) {
                    submissionIds.put(submissionId, 1);
                    observations.put(submissionId, observation);
                } else {
                    submissionIds.put(submissionId, submissionIds.get(submissionId) + 1);
                }
            }
        }
        List<ObservationWithCount> list = new ArrayList<ObservationWithCount>();
        for (Integer submissionId : observations.keySet()) {
            Observation obs = observations.get(submissionId);
            Integer count = submissionIds.get(submissionId);
            list.add(new ObservationWithCount(obs, count));
        }
        Collections.sort(list, new Comparator<ObservationWithCount>() {

            @Override
            public int compare(ObservationWithCount o1, ObservationWithCount o2) {
                Integer tier2 = o2.observation.getSubmission().getObservationTemplate().getTier();
                Integer tier1 = o1.observation.getSubmission().getObservationTemplate().getTier();
                return tier2 - tier1;
            }
        });
        return list;
    } else {
        return new ArrayList<ObservationWithCount>();
    }
}