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GATKKeyIntegrationTest.java
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GATKKeyIntegrationTest.java
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/*
* Copyright 2012-2015 Broad Institute, Inc.
*
* Permission is hereby granted, free of charge, to any person
* obtaining a copy of this software and associated documentation
* files (the "Software"), to deal in the Software without
* restriction, including without limitation the rights to use,
* copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the
* Software is furnished to do so, subject to the following
* conditions:
*
* The above copyright notice and this permission notice shall be
* included in all copies or substantial portions of the Software.
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
* EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
* OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
* NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
* HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
* WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
* FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR
* THE USE OR OTHER DEALINGS IN THE SOFTWARE.
*/
package org.broadinstitute.gatk.engine.crypt;
import org.broadinstitute.gatk.engine.walkers.WalkerTest;
import org.broadinstitute.gatk.engine.phonehome.GATKRunReport;
import org.broadinstitute.gatk.utils.exceptions.UserException;
import org.testng.annotations.DataProvider;
import org.testng.annotations.Test;
import java.util.Arrays;
public class GATKKeyIntegrationTest extends WalkerTest {
public static final String BASE_COMMAND = String.format("-T TestPrintReadsWalker -R %s -I %s -o %%s",
publicTestDir + "exampleFASTA.fasta",
publicTestDir + "exampleBAM.bam");
public static final String MD5_UPON_SUCCESSFUL_RUN = "462656ec9632f8c21ee534d35093c3f8";
private void runGATKKeyTest ( String testName, String etArg, String keyArg, Class expectedException, String md5 ) {
String command = BASE_COMMAND + String.format(" %s %s", etArg, keyArg);
WalkerTestSpec spec = expectedException != null ?
new WalkerTestSpec(command, 1, expectedException) :
new WalkerTestSpec(command, 1, Arrays.asList(md5));
spec.disableImplicitArgs(); // Turn off automatic inclusion of -et/-K args by WalkerTest
executeTest(testName, spec);
}
@Test
public void testValidKeyNoET() {
runGATKKeyTest("testValidKeyNoET",
"-et " + GATKRunReport.PhoneHomeOption.NO_ET,
"-K " + keysDataLocation + "valid.key",
null,
MD5_UPON_SUCCESSFUL_RUN);
}
@Test
public void testValidKeyETStdout() {
runGATKKeyTest("testValidKeyETStdout",
"-et " + GATKRunReport.PhoneHomeOption.STDOUT,
"-K " + keysDataLocation + "valid.key",
null,
MD5_UPON_SUCCESSFUL_RUN);
}
@Test
public void testValidKeyETStandard() {
runGATKKeyTest("testValidKeyETStandard",
"",
"-K " + keysDataLocation + "valid.key",
null,
MD5_UPON_SUCCESSFUL_RUN);
}
@Test
public void testNoKeyNoET() {
runGATKKeyTest("testNoKeyNoET",
"-et " + GATKRunReport.PhoneHomeOption.NO_ET,
"",
UserException.class,
null);
}
@Test
public void testNoKeyETStdout() {
runGATKKeyTest("testNoKeyETStdout",
"-et " + GATKRunReport.PhoneHomeOption.STDOUT,
"",
UserException.class,
null);
}
@Test
public void testNoKeyETStandard() {
runGATKKeyTest("testNoKeyETStandard",
"",
"",
null,
MD5_UPON_SUCCESSFUL_RUN);
}
@Test
public void testRevokedKey() {
runGATKKeyTest("testRevokedKey",
"-et " + GATKRunReport.PhoneHomeOption.NO_ET,
"-K " + keysDataLocation + "revoked.key",
UserException.KeySignatureVerificationException.class,
null);
}
@DataProvider(name = "CorruptKeyTestData")
public Object[][] corruptKeyDataProvider() {
return new Object[][] {
{ "corrupt_empty.key", UserException.UnreadableKeyException.class },
{ "corrupt_single_byte_file.key", UserException.UnreadableKeyException.class },
{ "corrupt_random_contents.key", UserException.UnreadableKeyException.class },
{ "corrupt_single_byte_deletion.key", UserException.UnreadableKeyException.class },
{ "corrupt_single_byte_insertion.key", UserException.UnreadableKeyException.class },
{ "corrupt_single_byte_change.key", UserException.UnreadableKeyException.class },
{ "corrupt_multi_byte_deletion.key", UserException.UnreadableKeyException.class },
{ "corrupt_multi_byte_insertion.key", UserException.UnreadableKeyException.class },
{ "corrupt_multi_byte_change.key", UserException.UnreadableKeyException.class },
{ "corrupt_bad_isize_field.key", UserException.UnreadableKeyException.class },
{ "corrupt_bad_crc.key", UserException.UnreadableKeyException.class },
{ "corrupt_no_email_address.key", UserException.UnreadableKeyException.class },
{ "corrupt_no_sectional_delimiter.key", UserException.UnreadableKeyException.class },
{ "corrupt_no_signature.key", UserException.UnreadableKeyException.class },
{ "corrupt_bad_signature.key", UserException.KeySignatureVerificationException.class },
{ "corrupt_non_gzipped_valid_key.key", UserException.UnreadableKeyException.class }
};
}
@Test(dataProvider = "CorruptKeyTestData")
public void testCorruptKey ( String corruptKeyName, Class expectedException ) {
runGATKKeyTest(String.format("testCorruptKey (%s)", corruptKeyName),
"-et " + GATKRunReport.PhoneHomeOption.NO_ET,
"-K " + keysDataLocation + corruptKeyName,
expectedException,
null);
}
@Test
public void testCorruptButNonRequiredKey() {
runGATKKeyTest("testCorruptButNonRequiredKey",
"",
"-K " + keysDataLocation + "corrupt_random_contents.key",
null,
MD5_UPON_SUCCESSFUL_RUN);
}
}