/**
* Create a data group
*
* @param doi
* @param webAddress
* @param title
* @return
*/
@POST
@Authenticated
@Consumes(MediaType.APPLICATION_FORM_URLENCODED)
@Produces(MediaType.APPLICATION_JSON)
public Response mint(
@FormParam("doi") String doi,
@FormParam("webAddress") String webAddress,
@FormParam("graph") String graph,
@FormParam("title") String title,
@FormParam("resourceType") String resourceTypeString,
@FormParam("resourceTypesMinusDataset") Integer resourceTypesMinusDataset,
@FormParam("finalCopy") @DefaultValue("false") Boolean finalCopy) {
// If resourceType is specified by an integer, then use that to set the String resourceType.
// If the user omits
try {
if (resourceTypesMinusDataset != null && resourceTypesMinusDataset > 0) {
resourceTypeString = new ResourceTypes().get(resourceTypesMinusDataset).uri;
}
} catch (IndexOutOfBoundsException e) {
throw new BadRequestException(
"BCID System Unable to set resource type",
"There was an error retrieving the resource type uri. Did you provide a valid resource type?");
}
if (resourceTypeString == null || resourceTypeString.isEmpty()) {
throw new BadRequestException("ResourceType is required");
}
// Mint the Bcid
if (title == null || title.isEmpty()) {
title = resourceTypeString;
}
Bcid.BcidBuilder builder =
new Bcid.BcidBuilder(resourceTypeString)
.ezidRequest(Boolean.valueOf(settingsManager.retrieveValue("ezidRequests")))
.doi(doi)
.title(title)
.graph(graph)
.finalCopy(finalCopy);
if (!StringUtils.isEmpty(webAddress)) {
UriComponents webAddressComponents = UriComponentsBuilder.fromUriString(webAddress).build();
builder.webAddress(webAddressComponents.toUri());
}
Bcid bcid = builder.build();
bcidService.create(bcid, user.getUserId());
// TODO return the bcid object here
return Response.ok("{\"identifier\": \"" + bcid.getIdentifier() + "\"}").build();
}
/*
* (non-Javadoc)
* @see org.springframework.hateoas.MethodLinkBuilderFactory#linkTo(java.lang.Object)
*/
@Override
public ControllerLinkBuilder linkTo(Object invocationValue) {
Assert.isInstanceOf(LastInvocationAware.class, invocationValue);
LastInvocationAware invocations = (LastInvocationAware) invocationValue;
MethodInvocation invocation = invocations.getLastInvocation();
Iterator<Object> classMappingParameters = invocations.getObjectParameters();
Method method = invocation.getMethod();
String mapping = DISCOVERER.getMapping(method);
UriComponentsBuilder builder = ControllerLinkBuilder.getBuilder().path(mapping);
UriTemplate template = new UriTemplate(mapping);
Map<String, Object> values = new HashMap<String, Object>();
Iterator<String> names = template.getVariableNames().iterator();
while (classMappingParameters.hasNext()) {
values.put(names.next(), classMappingParameters.next());
}
for (BoundMethodParameter parameter : PATH_VARIABLE_ACCESSOR.getBoundParameters(invocation)) {
values.put(parameter.getVariableName(), parameter.asString());
}
for (BoundMethodParameter parameter : REQUEST_PARAM_ACCESSOR.getBoundParameters(invocation)) {
Object value = parameter.getValue();
String key = parameter.getVariableName();
if (value instanceof Collection) {
for (Object element : (Collection<?>) value) {
builder.queryParam(key, element);
}
} else {
builder.queryParam(key, parameter.asString());
}
}
UriComponents components =
applyUriComponentsContributer(builder, invocation).buildAndExpand(values);
return new ControllerLinkBuilder(UriComponentsBuilder.fromUri(components.toUri()));
}
public CellLine getCellLine(String biosampleId) throws RestClientException {
UriComponents uriComponents =
UriComponentsBuilder.newInstance()
.scheme("https")
.host(apiHost)
.pathSegment("api", "v0", "cell-lines", biosampleId)
.build();
log.trace("URI = " + uriComponents.toUriString());
HttpHeaders headers = new HttpHeaders();
headers.set("Authorization", "ApiKey " + apiUsername + ":" + apiKey);
HttpEntity<String> entity = new HttpEntity<String>("parameters", headers);
ResponseEntity<CellLine> responce =
restTemplate.exchange(uriComponents.toUri(), HttpMethod.GET, entity, CellLine.class);
log.trace("HTTP code = " + responce.getStatusCode());
return responce.getBody();
}
public GoogleSearchResponse search(String searchString, String referer) {
try {
if (ValidatorUtil.isNull(referer)) {
referer = "http://longfalcon.net";
}
String v = "1.0";
String userip = "192.168.0.1";
HttpHeaders httpHeaders = new HttpHeaders();
httpHeaders.set("Referer", referer);
HttpEntity<?> requestEntity = new HttpEntity(httpHeaders);
UriComponents uriComponents =
UriComponentsBuilder.fromUriString(_SEARCH_URL)
.queryParam("v", v)
.queryParam("q", searchString)
.queryParam("userip", userip)
.build();
ResponseEntity<GoogleSearchResponse> responseEntity =
restTemplate.exchange(
uriComponents.toUri(), HttpMethod.GET, requestEntity, GoogleSearchResponse.class);
HttpStatus statusCode = responseEntity.getStatusCode();
if (statusCode.is2xxSuccessful() || statusCode.is3xxRedirection()) {
return responseEntity.getBody();
} else {
_log.error(
String.format(
"Search request: \n%s\n failed with HTTP code %s : %s",
uriComponents.toString(), statusCode.toString(), statusCode.getReasonPhrase()));
return null;
}
} catch (Exception e) {
_log.error(e);
}
return null;
}
