/*
* Recursive descent into subclusters.
*/
private static void flatten(ArrayList<Cluster> flattened, Collection<Cluster> clusters) {
for (Cluster c : clusters) {
flattened.add(c);
final List<Cluster> subclusters = c.getSubclusters();
if (!subclusters.isEmpty()) {
flatten(flattened, subclusters);
}
}
}
public static List<PatientSearchResult> getDynamicSearch(
List<DynamicSearchCriteria> criteria, String stateRelation, String userToken) {
// Use a form because there are an unknown number of values
MultivaluedMap form = new MultivaluedMapImpl();
// stateRelation is how the criteria are logically related "AND", "OR"
form.add("stateRelation", stateRelation);
int i = 0;
// Step through all criteria given, the form fields are appended with an integer
// to maintain grouping in REST call (dataGroup0, dataGroup1...)
for (DynamicSearchCriteria dcriteria : criteria) {
form.add("sourceName" + i, dcriteria.getDataGroup());
form.add("itemName" + i, dcriteria.getField());
form.add("operator" + i, dcriteria.getOperator().getValue());
form.add("value" + i, dcriteria.getValue());
i++;
}
ClientConfig cc = new DefaultClientConfig();
cc.getClasses().add(JacksonJsonProvider.class);
Client client = Client.create();
WebResource resource =
client.resource(APIURLHolder.getUrl() + "/nbia-api/services/getDynamicSearch");
ClientResponse response =
resource
.accept(MediaType.APPLICATION_JSON)
.type(MediaType.APPLICATION_FORM_URLENCODED)
.header("Authorization", "Bearer " + userToken)
.post(ClientResponse.class, form);
// check response status code
if (response.getStatus() != 200) {
throw new RuntimeException("Failed : HTTP error code : " + response.getStatus());
}
// display response
String output = response.getEntity(String.class);
List<PatientSearchResultImpl> myObjects;
try {
// Object json = mapper.readValue(output, Object.class);
// String indented = mapper.writerWithDefaultPrettyPrinter().writeValueAsString(json);
// logger.info("Returned JSON\n"+indented);
myObjects = mapper.readValue(output, new TypeReference<List<PatientSearchResultImpl>>() {});
} catch (Exception e) {
e.printStackTrace();
return null;
}
List<PatientSearchResult> returnValue = new ArrayList<PatientSearchResult>();
for (PatientSearchResultImpl result : myObjects) {
returnValue.add(result);
}
return returnValue;
}
/**
* If there are unclustered documents, appends the "Other Topics" group to the <code>clusters
* </code>.
*
* @see #buildOtherTopics(List, List, String)
*/
public static void appendOtherTopics(
List<Document> allDocuments, List<Cluster> clusters, String label) {
final Cluster otherTopics = buildOtherTopics(allDocuments, clusters, label);
if (!otherTopics.getDocuments().isEmpty()) {
clusters.add(otherTopics);
}
}
public static List<PatientSearchResult> getTextSearch(String textValue, String userToken) {
Form form = new Form();
form.add("textValue", textValue);
ClientConfig cc = new DefaultClientConfig();
cc.getClasses().add(JacksonJsonProvider.class);
Client client = Client.create();
WebResource resource =
client.resource(APIURLHolder.getUrl() + "/nbia-api/services/getTextSearch");
ClientResponse response =
resource
.accept(MediaType.APPLICATION_JSON)
.type(MediaType.APPLICATION_FORM_URLENCODED)
.header("Authorization", "Bearer " + userToken)
.post(ClientResponse.class, form);
// check response status code
if (response.getStatus() != 200) {
throw new RuntimeException("Failed : HTTP error code : " + response.getStatus());
}
// display response
String output = response.getEntity(String.class);
List<PatientTextSearchResult> myObjects;
try {
// Object json = mapper.readValue(output, Object.class);
// String indented = mapper.writerWithDefaultPrettyPrinter().writeValueAsString(json);
// logger.info("Returned JSON\n"+indented);
myObjects =
mapper.readValue(output, new TypeReference<List<PatientTextSearchResultImpl>>() {});
} catch (Exception e) {
e.printStackTrace();
return null;
}
List<PatientSearchResult> returnValue = new ArrayList<PatientSearchResult>();
for (PatientTextSearchResult result : myObjects) {
returnValue.add(result);
}
return returnValue;
}
public static DefaultOAuth2AccessToken getToken(String userName, String password) {
Form form = new Form();
form.add("username", userName);
form.add("password", password);
form.add("client_id", "nbiaRestAPIClient");
form.add("client_secret", "ItsBetweenUAndMe");
form.add("grant_type", "password");
ClientConfig cc = new DefaultClientConfig();
cc.getClasses().add(JacksonJsonProvider.class);
Client client = Client.create();
WebResource resource = client.resource(APIURLHolder.getUrl() + "/nbia-api/oauth/token");
ClientResponse response =
resource
.accept(MediaType.APPLICATION_JSON)
.type(MediaType.APPLICATION_FORM_URLENCODED)
.post(ClientResponse.class, form);
// check response status code
if (response.getStatus() != 200) {
throw new RuntimeException("Failed : HTTP error code : " + response.getStatus());
}
// display response
String output = response.getEntity(String.class);
output = "[" + output + "]";
List<DefaultOAuth2AccessToken> myObjects;
try {
myObjects = mapper.readValue(output, new TypeReference<List<DefaultOAuth2AccessToken>>() {});
} catch (Exception e) {
e.printStackTrace();
return null;
}
return myObjects.get(0);
}
public static String getJNLP(
List<BasketSeriesItemBean> seriesItems,
String password,
boolean annotation,
String userToken) {
// Use a form because there are an unknown number of values
MultivaluedMap form = new MultivaluedMapImpl();
if ((seriesItems == null) || (seriesItems.size() == 0)) {
return "";
}
// Step through all data in series items for display in download manager
for (BasketSeriesItemBean item : seriesItems) {
form.add("list", item.getSeriesId());
}
form.add("password", password);
String annotationString = "false";
if (annotation) {
annotationString = "true";
}
form.add("includeAnnotation", annotationString);
ClientConfig cc = new DefaultClientConfig();
cc.getClasses().add(JacksonJsonProvider.class);
Client client = Client.create();
WebResource resource =
client.resource(APIURLHolder.getUrl() + "/nbia-api/services/getJNLPText");
ClientResponse response =
resource
.accept(MediaType.TEXT_PLAIN)
.type(MediaType.APPLICATION_FORM_URLENCODED)
.header("Authorization", "Bearer " + userToken)
.post(ClientResponse.class, form);
// check response status code
if (response.getStatus() != 200) {
throw new RuntimeException("Failed : HTTP error code : " + response.getStatus());
}
// display response
String output = response.getEntity(String.class);
return output;
}
public static void getSimpleSearch(List<Criteria> criteria, String userToken) {
// Use a form because there are an unknown number of values
MultivaluedMap form = new MultivaluedMapImpl();
int i = 0;
// Step through all criteria given, the form fields are appended with an integer
// to maintain grouping in REST call (dataGroup0, dataGroup1...)
for (Criteria scriteria : criteria) {
if (scriteria instanceof CollectionCriteria) {
CollectionCriteria cri = (CollectionCriteria) scriteria;
for (String collection : ((CollectionCriteria) scriteria).getCollectionObjects()) {
form.add("criteriaType" + i, "CollectionCriteria");
form.add("value" + i, collection);
}
}
if (scriteria instanceof ImageModalityCriteria) {
ImageModalityCriteria cri = (ImageModalityCriteria) scriteria;
for (String value : ((ImageModalityCriteria) scriteria).getImageModalityObjects()) {
form.add("criteriaType" + i, "ImageModalityCriteria");
form.add("value" + i, value);
}
}
if (scriteria instanceof AnatomicalSiteCriteria) {
AnatomicalSiteCriteria cri = (AnatomicalSiteCriteria) scriteria;
for (String value : ((AnatomicalSiteCriteria) scriteria).getAnatomicalSiteValueObjects()) {
form.add("criteriaType" + i, "AnatomicalSiteCriteria");
form.add("value" + i, value);
}
}
if (scriteria instanceof ManufacturerCriteria) {
ManufacturerCriteria cri = (ManufacturerCriteria) scriteria;
for (String value : ((ManufacturerCriteria) scriteria).getManufacturerObjects()) {
form.add("criteriaType" + i, "ManufacturerCriteria");
form.add("value" + i, value);
}
}
if (scriteria instanceof DateRangeCriteria) {
DateRangeCriteria cri = (DateRangeCriteria) scriteria;
form.add("criteriaType" + i, "DateRangeCriteria");
SimpleDateFormat formatter = new SimpleDateFormat("dd/mm/yyyy");
form.add("fromDate" + i, formatter.format(cri.getFromDate()));
form.add("toDate" + i, formatter.format(cri.getToDate()));
}
if (scriteria instanceof PatientCriteria) {
PatientCriteria cri = (PatientCriteria) scriteria;
for (String value : ((PatientCriteria) scriteria).getPatientIdObjects()) {
form.add("criteriaType" + i, "PatientCriteria");
form.add("value" + i, value);
}
}
if (scriteria instanceof MinNumberOfStudiesCriteria) {
MinNumberOfStudiesCriteria cri = (MinNumberOfStudiesCriteria) scriteria;
form.add("criteriaType" + i, "MinNumberOfStudiesCriteria");
form.add("value" + i, cri.getMinNumberOfStudiesValue().toString());
}
i++;
}
ClientConfig cc = new DefaultClientConfig();
cc.getClasses().add(JacksonJsonProvider.class);
Client client = Client.create();
WebResource resource =
client.resource(APIURLHolder.getUrl() + "/nbia-api/services/getSimpleSearch");
ClientResponse response =
resource
.accept(MediaType.APPLICATION_JSON)
.type(MediaType.APPLICATION_FORM_URLENCODED)
.header("Authorization", "Bearer " + userToken)
.post(ClientResponse.class, form);
// check response status code
if (response.getStatus() != 200) {
throw new RuntimeException("Failed : HTTP error code : " + response.getStatus());
}
// display response
String output = response.getEntity(String.class);
List<PatientSearchResultImpl> myObjects;
try {
// Object json = mapper.readValue(output, Object.class);
// String indented = mapper.writerWithDefaultPrettyPrinter().writeValueAsString(json);
// logger.info("Returned JSON\n"+indented);
myObjects = mapper.readValue(output, new TypeReference<List<PatientSearchResultImpl>>() {});
} catch (Exception e) {
e.printStackTrace();
return;
}
List<PatientSearchResult> returnValue = new ArrayList<PatientSearchResult>();
for (PatientSearchResultImpl result : myObjects) {
returnValue.add(result);
}
return;
}
/** For JSON serialization only. */
@JsonProperty("clusters")
@SuppressWarnings("unused")
private List<Cluster> getSubclustersForSerialization() {
return subclustersView.isEmpty() ? null : subclustersView;
}