public void test_01() {
		String args[] = { "-classic", "-noOut", "testHg3766Chr1", "./tests/huge_deletion_DEL.vcf" };

		SnpEff cmd = new SnpEff(args);
		SnpEffCmdEff cmdEff = (SnpEffCmdEff) cmd.snpEffCmd();

		List<VcfEntry> vcfEntries = cmdEff.run(true);

		// Make sure these are "CHROMOSOME_LARGE_DELETION" type of variants
		for (VcfEntry ve : vcfEntries) {
			System.out.println(ve.getChromosomeName() + "\t" + ve.getStart() + "\t" + ve.getInfoStr());

			String eff = ve.getInfo("EFF");
			if (eff != null) Assert.assertTrue(eff.startsWith("CHROMOSOME_LARGE_DELETION(HIGH"));
			else throw new RuntimeException("Effect is null!");
		}
	}