Request now parses the whole structures, need to fix the result

[jalview.git] / src / jalview / fts / service / threedbeacons / TDBeaconsFTSRestClient.java

diff --git a/src/jalview/fts/service/threedbeacons/TDBeaconsFTSRestClient.java b/src/jalview/fts/service/threedbeacons/TDBeaconsFTSRestClient.java
index b6be709..884dced 100644 (file)
--- a/src/jalview/fts/service/threedbeacons/TDBeaconsFTSRestClient.java
+++ b/src/jalview/fts/service/threedbeacons/TDBeaconsFTSRestClient.java
@@ -47,14 +47,6 @@ public class TDBeaconsFTSRestClient extends FTSRestClient
   {
     try
     {
-      // Removed wantedFields, sortParam & facetPivot from PDBFTSRClient
-      String wantedFields = getDataColumnsFieldsAsCommaDelimitedString(
-              tdbRestRequest.getWantedFields());
-      int responseSize = (tdbRestRequest.getResponseSize() == 0)
-              ? getDefaultResponsePageSize()
-              : tdbRestRequest.getResponseSize();
-      //int offSet = pdbRestRequest.getOffSet();
-      
       String query = tdbRestRequest.getFieldToSearchBy()
               + tdbRestRequest.getSearchTerm();
       Client client;
@@ -75,12 +67,9 @@ public class TDBeaconsFTSRestClient extends FTSRestClient
         clientResponseClass = ClientResponse.class;
       }
       WebResource webResource;
-      webResource = client.resource(DEFAULT_THREEDBEACONS_DOMAIN).path(query);
+      webResource = client.resource(DEFAULT_THREEDBEACONS_DOMAIN)
+              .path(query);
       URI uri = webResource.getURI();
-//              .queryParam("P", query);
-//              .queryParam("rows", String.valueOf(responseSize))
-//              .queryParam("P",query);
-//      URI uri = webResource.getURI();
       System.out.println(uri.toString());
         
       // Execute the REST request
@@ -92,13 +81,11 @@ public class TDBeaconsFTSRestClient extends FTSRestClient
       Map<String, Object> jsonObj = null;
       String responseString = null;
   
-      //System.out.println("query >>>>>>> " + tdbRestRequest.toString());
-        
       // Check the response status and report exception if one occurs
       int responseStatus = clientResponse.getStatus();
       switch (responseStatus)
       {
-      // if succesful
+      // if success
       case 200:
         if (Platform.isJS())
         {
@@ -165,13 +152,18 @@ public class TDBeaconsFTSRestClient extends FTSRestClient
       {
         jsonObj = (Map<String, Object>) JSONUtils.parse(tdbJsonResponseString);
       }
+      System.out.println(jsonObj);
       //Map<String, Object> tdbResponse = (Map<String, Object>) jsonObj.get("structures");
-      //String seqLength = tdbEntry.get("sequence_length").toString();
-      //int seqLength = Integer.valueOf(tdbEntry.get("sequence_length").toString());
       
+      //System.out.println((Map<String, Object>) jsonObj.get("uniprot_entry")); 
       Long seqLength = (Long) ((Map<String, Object>) jsonObj.get("uniprot_entry")).get("sequence_length");
+      System.out.println(seqLength);
       result = new ArrayList<>();
       List<Object> structures = (List<Object>) jsonObj.get("structures");
+      //System.out.println(jsonObj.get("structures"));
+      //System.out.println(structures);
+      System.out.println("ZERO : " + structures.get(0));
+      System.out.println("1 : " + structures.get(1));
       int numFound = 0;
       for (Iterator<Object> strucIter = structures.iterator(); strucIter
               .hasNext();)
@@ -179,10 +171,13 @@ public class TDBeaconsFTSRestClient extends FTSRestClient
         Map<String, Object> structure = (Map<String, Object>) strucIter.next();
         result.add(getFTSData(structure, tdbRestRequest));
         numFound++;
+        //System.out.println(structure);
       }
-        searchResult.setNumberOfItemsFound(numFound); 
-        searchResult.setSearchSummary(result);
-        searchResult.setSequenceLength(seqLength);
+      //System.out.println(structures);
+      System.out.println("1 : " + structures.get(1));
+      searchResult.setNumberOfItemsFound(numFound); 
+      searchResult.setSearchSummary(result);
+      searchResult.setSequenceLength(seqLength);
         
     } catch (ParseException e)
     {