Package org.labkey.remoteapi.assay.nab

Class NAbRunsResponse

java.lang.Object

org.labkey.remoteapi.CommandResponse

org.labkey.remoteapi.assay.nab.NAbRunsResponse

public class NAbRunsResponse
extends CommandResponse

Response class for the NAbRunsCommand. This class provides helpful getter method to access particular bits of the parsed response data. Sample usage:

 public static void main(String[] args) throws Exception
 {
     // expected parameters:
     // args[0]: username
     // args[1]: password
     Connection conn = new Connection("http://myserver/labkey", args[0], args[1]);
     double avg = getAverageNeutDilution(cn, "/home", "NAB", 50);
     System.out.println("Average dilution where 50 percent neutralization occurs: " + avg);
 }

 public static double getAverageNeutDilution(Connection cn, String folderPath, String assayName, int neutPercent) throws CommandException, IOException
 {
     NAbRunsCommand nabCommand = new NAbRunsCommand();
     nabCommand.setAssayName(assayName);
     nabCommand.setCalculateNeut(true);
     nabCommand.setIncludeFitParameters(false);
     nabCommand.setIncludeStats(false);
     nabCommand.setIncludeWells(false);
     NAbRunsResponse runResponse = nabCommand.execute(cn, folderPath);
     NAbRun[] runs = runResponse.getRuns();
     int totalSamples = 0;
     double totalDilution = 0;
     for (NAbRun run : runs)
     {
         for (NAbSample sample : run.getSamples())
         {
             for (NAbNeutralizationResult neutResult : sample.getNeutralizationResults())
             {
                 // only total non-infinite values (that is, results where we found a neutralizing dilution:
                 if (neutResult.getCutoff() == neutPercent && !Double.isInfinite(neutResult.getCurveBasedDilution()))
                 {
                     totalSamples++;
                     totalDilution += neutResult.getCurveBasedDilution();
                 }
             }
         }
     }
     return totalDilution/totalSamples;
 }

Constructor Summary

Constructors

Constructor	Description
NAbRunsResponse(String text, int statusCode, String contentType, org.json.JSONObject json)	Constructs a new CommandResponse, initialized with the provided response text and status code.

Method Summary

Modifier and Type	Method	Description
String	getAssayDescription()
Integer	getAssayId()
String	getAssayName()
NAbRun[]	getRuns()

Methods inherited from class org.labkey.remoteapi.CommandResponse

findObject, getContentType, getParsedData, getProperty, getProperty, getStatusCode, getText

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

NAbRunsResponse

public NAbRunsResponse(String text,
 int statusCode,
 String contentType,
 org.json.JSONObject json)

Constructs a new CommandResponse, initialized with the provided response text and status code.

Parameters:

text - The response text

statusCode - The HTTP status code

contentType - The response content type

json - The parsed JSONObject (or null if JSON was not returned)

Method Details

getRuns

public NAbRun[] getRuns()

getAssayName

public String getAssayName()

getAssayId

public Integer getAssayId()

getAssayDescription

public String getAssayDescription()