/*
* Copyright 2015-2016 OpenCB
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*/
/**
*
*/
package org.opencb.opencga.storage.hadoop.mr;
import org.junit.Before;
import org.junit.Test;
import org.opencb.biodata.models.variant.protobuf.VcfSliceProtos.VcfRecord;
import org.opencb.opencga.storage.hadoop.variant.archive.VcfRecordComparator;
import static org.junit.Assert.assertEquals;
/**
* @author Matthias Haimel mh719+git@cam.ac.uk
*/
public class VcfRecordComparatorTest {
private VcfRecord a1;
private VcfRecord a2;
private VcfRecord b1;
private VcfRecord b2;
private VcfRecordComparator vcfRecordComparator;
/**
* @throws java.lang.Exception
*/
@Before
public void setUp() throws Exception {
a1 = VcfRecord.newBuilder().setRelativeStart(1).setRelativeEnd(2).setAlternate("a").build();
a2 = VcfRecord.newBuilder().setRelativeStart(2).setRelativeEnd(2).setAlternate("a").build();
b1 = VcfRecord.newBuilder().setRelativeStart(1).setRelativeEnd(3).setAlternate("b").build();
b2 = VcfRecord.newBuilder().setRelativeStart(1).setRelativeEnd(2).setAlternate("b").build();
vcfRecordComparator = new VcfRecordComparator();
}
/**
* Test method for {@link VcfRecordComparator#compare(VcfRecord, VcfRecord)}.
*/
@Test
public void testStart() {
int comp = vcfRecordComparator.compare(a1, a2);
assertEquals(-1, comp);
}
@Test
public void testEqual() {
int comp = vcfRecordComparator.compare(a1, a1);
assertEquals(0, comp);
}
@Test
public void testLarger() {
int comp = vcfRecordComparator.compare(a2, a1);
assertEquals(1, comp);
}
@Test
public void testEnd() {
int comp = vcfRecordComparator.compare(a1, b1);
assertEquals(-1, comp);
}
@Test
public void testAlt() {
int comp = vcfRecordComparator.compare(a1, b2);
assertEquals(-1, comp);
}
}