Examples with BamToSql com.github.lindenb.jvarkit.tools.misc.BamToSql used on opensource projects

Example 1 with BamToSql

use of com.github.lindenb.jvarkit.tools.misc.BamToSql in project jvarkit by lindenb.

the class TestNg01 method testBamToSql.

@Test
public void testBamToSql() throws IOException {
    File tmp = new File(TEST_RESULTS_DIR, "jeter.sql");
    Assert.assertEquals(0, new BamToSql().instanceMain(new String[] { "-o", tmp.getPath(), "-R", TOY_FA, "-r", "ref:1-100", TOY_BAM }));
    Assert.assertTrue(tmp.exists());
}