CropTrimmerReadFilterTest.java

package fr.ens.biologie.genomique.eoulsan.bio.readsfilters;

import static org.junit.Assert.assertEquals;
import static org.junit.Assert.assertFalse;
import static org.junit.Assert.assertTrue;

import org.junit.Test;

import fr.ens.biologie.genomique.eoulsan.EoulsanException;
import fr.ens.biologie.genomique.eoulsan.bio.ReadSequence;

public class CropTrimmerReadFilterTest {
  @Test
  public void CropTirmmertest() throws EoulsanException {
  ReadFilter filter = new CropTrimmerReadFilter();

  filter.setParameter("arguments", "5");
  filter.init();

  ReadSequence read =
      new ReadSequence(0, "read1", "AGGGGGCAAA", "xwxwxxabcd");
  assertTrue(filter.accept(read));
  assertEquals("read1", read.getName());
  assertEquals("AGGGG", read.getSequence());
  assertEquals("xwxwx", read.getQuality());
  assertFalse(read.getSequence() == "AGGGG");
  assertFalse(read.getSequence() == "GCAAA");
  assertFalse(filter.accept(null));
  
  }
}