@GET
@Path("/{id}/xref")
@ApiOperation(httpMethod = "GET", value = "Retrieves all the external references for the ID")
public Response getByFeatureId(
@PathParam("id") String query, @DefaultValue("") @QueryParam("dbname") String dbname) {
try {
checkParams();
XRefsDBAdaptor xRefDBAdaptor = dbAdaptorFactory.getXRefDBAdaptor(this.species, this.assembly);
if (!dbname.equals("")) {
queryOptions.put("dbname", Splitter.on(",").splitToList(dbname));
}
return createOkResponse(
xRefDBAdaptor.getAllByDBNameList(Splitter.on(",").splitToList(query), queryOptions));
// if (dbName.equals("")) {
// return generateResponse(query, "XREF",
// x.getAllByDBNameList(Splitter.on(",").splitToList(query), null));
// }
// else {
// return generateResponse(query, "XREF",
// x.getAllByDBNameList(Splitter.on(",").splitToList(query),
// Splitter.on(",").splitToList(dbName)));
// }
} catch (Exception e) {
e.printStackTrace();
return createErrorResponse("getAllByAccessions", e.toString());
}
}
@GET
@Path("/{id}/contains")
/*
@ApiOperation(httpMethod = "GET", value = "Get the genes that contain the given string")
*/
public Response getByContainsQuery(@PathParam("id") String query) {
try {
checkParams();
XRefsDBAdaptor x = dbAdaptorFactory.getXRefDBAdaptor(this.species, this.assembly);
List<List<Xref>> xrefs = x.getByContainsQueryList(Splitter.on(",").splitToList(query));
if (query.startsWith("rs")
|| query.startsWith("AFFY_")
|| query.startsWith("SNP_")
|| query.startsWith("VAR_")
|| query.startsWith("CRTAP_")
|| query.startsWith("FKBP10_")
|| query.startsWith("LEPRE1_")
|| query.startsWith("PPIB_")) {
List<QueryResult> snpXrefs =
x.getByStartsWithSnpQueryList(Splitter.on(",").splitToList(query), queryOptions);
// for (List<Xref> xrefList : snpXrefs) {
// xrefs.get(0).addAll(xrefList);
// }
}
return generateResponse(query, xrefs);
} catch (Exception e) {
e.printStackTrace();
return createErrorResponse("getAllByAccessions", e.toString());
}
}