Examples of Cigar

Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "81M");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_spanElems1() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 0, 100);
    Assert.assertEquals(cigar2.toString(), "100M1I");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "100M1I");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_spanElems2() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 1, 100);
    Assert.assertEquals(cigar2.toString(), "99M1I");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "99M1I");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_spanElems3() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 1, 199);
    Assert.assertEquals(cigar2.toString(), "99M100I");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "99M100I");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_skipElem() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 100, 199);
    Assert.assertEquals(cigar2.toString(), "100I");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "100I");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_skipElem2() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 200, 299);
    Assert.assertEquals(cigar2.toString(), "100M");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "100M");
  }

  @Test (groups = "unit")
  public void testSubsetCigar_skipAndSpan1() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 100, 249);
    Assert.assertEquals(cigar2.toString(), "100I50M");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "100I50M");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_skipAndSpan2() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 150, 249);
    Assert.assertEquals(cigar2.toString(), "50I50M");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "50I50M");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_spanAll1() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 0, 299);
    Assert.assertEquals(cigar2.toString(), "100M100I100M");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "100M100I100M");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_spanAll2() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 0, 298);
    Assert.assertEquals(cigar2.toString(), "100M100I99M");
  }
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Examples of net.sf.samtools.Cigar

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    Assert.assertEquals(cigar2.toString(), "100M100I99M");
  }
 
  @Test (groups = "unit")
  public void testSubsetCigar_spanAll3() {
    Cigar cigar = getCigar("100M100I100M");
    Cigar cigar2 = SAMRecordUtils.subset(cigar, 1, 299);
    Assert.assertEquals(cigar2.toString(), "99M100I100M");
  }
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