Package fr.ens.biologie.genomique.aozan.tests.sample

Class Q30PercentSampleTest

java.lang.Object

fr.ens.biologie.genomique.aozan.tests.sample.AbstractSampleTest

fr.ens.biologie.genomique.aozan.tests.sample.Q30PercentSampleTest

All Implemented Interfaces:

AozanTest, SampleTest

public class Q30PercentSampleTest
extends AbstractSampleTest

This class define a percent Q30 sample test.

Since:

0.8

Author:

Laurent Jourdren

Constructor Summary

Constructors

Constructor	Description
Q30PercentSampleTest()	Public constructor.

Method Summary

Modifier and Type	Method	Description
List<AozanTest>	configure(TestConfiguration conf)	Configure the test.
List<String>	getCollectorsNamesRequiered()	Get the name of the collectors required for the test.
TestResult	test(RunData data, int read, int readSample, int sampleId)	Do a test.

Methods inherited from class fr.ens.biologie.genomique.aozan.tests.sample.AbstractSampleTest

getColumnName, getDescription, getName, getUnit, init

Methods inherited from class java.lang.Object

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

Constructor Detail

Q30PercentSampleTest

public Q30PercentSampleTest()

Public constructor.

Method Detail

getCollectorsNamesRequiered

public List<String> getCollectorsNamesRequiered()

Description copied from interface: AozanTest

Get the name of the collectors required for the test.

Returns:

a list of String with the name of the required collectors

test

public TestResult test(RunData data,
                       int read,
                       int readSample,
                       int sampleId)

Description copied from interface: SampleTest

Do a test.

Parameters:

data - result object

read - index of read

readSample - index of read without indexed reads

sampleId - the sample id of the sample to test.

Returns:

a TestResult object with the result of the test

configure

public List<AozanTest> configure(TestConfiguration conf)
                          throws AozanException

Description copied from interface: AozanTest

Configure the test.

Parameters:

conf - the test configuration

Returns:

list of Aozan tests

Throws:

AozanException