Example usage for org.apache.commons.io FileUtils contentEquals

Introduction

In this page you can find the example usage for org.apache.commons.io FileUtils contentEquals.

Prototype

public static boolean contentEquals(File file1, File file2) throws IOException 

Source Link

Document

Compares the contents of two files to determine if they are equal or not.

Usage

From source file:ProxyAuthTest.java

private static void compareResults(File file2) throws IOException {
    // load the expected results
    File baseResultFile = new File(System.getProperty("proxyAuth.res.file"), "data/files/ProxyAuth.res");
    if (!FileUtils.contentEquals(baseResultFile, file2)) {
        throw new IOException("File compare failed: " + file2.getPath() + " differs");
    }/*from   w  w  w. j  a v a 2s.com*/
}

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From source file:edu.cornell.med.icb.goby.modes.TestReformatCompactReadsMode.java

/**
 * Validates that setting a read length trim value will not exclude reads that are
 * within the limit from being written to the output.
 *
 * @throws IOException if there is a problem reading or writing to the files
 *///from w  w w  .  j a v a  2  s  .c  om
@Test
public void trimReadLengthsAt35() throws IOException {
    final ReformatCompactReadsMode reformat = new ReformatCompactReadsMode();

    final String inputFilename = "test-data/compact-reads/s_1_sequence_short.compact-reads";
    reformat.setInputFilenames(inputFilename);
    reformat.setTrimReadLength(35);

    final String outputFilename = "test-results/reformat-test-exclude-read-lengths-at-extrreme.compact-reads";
    reformat.setOutputFile(outputFilename);
    reformat.execute();

    assertTrue(FileUtils.contentEquals(new File(inputFilename), new File(outputFilename)));
}

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From source file:com.spectralogic.ds3client.integration.GetJobManagement_Test.java

@Test
public void createReadJobWithBigFile() throws IOException, URISyntaxException, NoSuchMethodException,
        IllegalAccessException, InvocationTargetException {
    final String tempPathPrefix = null;
    final Path tempDirectory = Files.createTempDirectory(Paths.get("."), tempPathPrefix);

    try {/* w w w .  ja  v  a 2  s.com*/
        final String DIR_NAME = "largeFiles/";
        final String FILE_NAME = "lesmis-copies.txt";

        final Path objPath = ResourceUtils.loadFileResource(DIR_NAME + FILE_NAME);
        final long bookSize = Files.size(objPath);
        final Ds3Object obj = new Ds3Object(FILE_NAME, bookSize);

        final Ds3ClientShim ds3ClientShim = new Ds3ClientShim((Ds3ClientImpl) client);

        final int maxNumBlockAllocationRetries = 1;
        final int maxNumObjectTransferAttempts = 3;
        final Ds3ClientHelpers ds3ClientHelpers = Ds3ClientHelpers.wrap(ds3ClientShim,
                maxNumBlockAllocationRetries, maxNumObjectTransferAttempts);

        final Ds3ClientHelpers.Job readJob = ds3ClientHelpers.startReadJob(BUCKET_NAME, Arrays.asList(obj));

        final AtomicBoolean dataTransferredEventReceived = new AtomicBoolean(false);
        final AtomicBoolean objectCompletedEventReceived = new AtomicBoolean(false);
        final AtomicBoolean checksumEventReceived = new AtomicBoolean(false);
        final AtomicBoolean metadataEventReceived = new AtomicBoolean(false);
        final AtomicBoolean waitingForChunksEventReceived = new AtomicBoolean(false);
        final AtomicBoolean failureEventReceived = new AtomicBoolean(false);

        readJob.attachDataTransferredListener(new DataTransferredListener() {
            @Override
            public void dataTransferred(final long size) {
                dataTransferredEventReceived.set(true);
                assertEquals(bookSize, size);
            }
        });
        readJob.attachObjectCompletedListener(new ObjectCompletedListener() {
            @Override
            public void objectCompleted(final String name) {
                objectCompletedEventReceived.set(true);
            }
        });
        readJob.attachChecksumListener(new ChecksumListener() {
            @Override
            public void value(final BulkObject obj, final ChecksumType.Type type, final String checksum) {
                checksumEventReceived.set(true);
                assertEquals("0feqCQBgdtmmgGs9pB/Huw==", checksum);
            }
        });
        readJob.attachMetadataReceivedListener(new MetadataReceivedListener() {
            @Override
            public void metadataReceived(final String filename, final Metadata metadata) {
                metadataEventReceived.set(true);
            }
        });
        readJob.attachWaitingForChunksListener(new WaitingForChunksListener() {
            @Override
            public void waiting(final int secondsToWait) {
                waitingForChunksEventReceived.set(true);
            }
        });
        readJob.attachFailureEventListener(new FailureEventListener() {
            @Override
            public void onFailure(final FailureEvent failureEvent) {
                failureEventReceived.set(true);
            }
        });

        final GetJobSpectraS3Response jobSpectraS3Response = ds3ClientShim
                .getJobSpectraS3(new GetJobSpectraS3Request(readJob.getJobId()));

        assertThat(jobSpectraS3Response.getMasterObjectListResult(), is(notNullValue()));

        readJob.transfer(new FileObjectGetter(tempDirectory));

        final File originalFile = ResourceUtils.loadFileResource(DIR_NAME + FILE_NAME).toFile();
        final File fileCopiedFromBP = Paths.get(tempDirectory.toString(), FILE_NAME).toFile();
        assertTrue(FileUtils.contentEquals(originalFile, fileCopiedFromBP));

        assertTrue(dataTransferredEventReceived.get());
        assertTrue(objectCompletedEventReceived.get());
        assertTrue(checksumEventReceived.get());
        assertTrue(metadataEventReceived.get());
        assertFalse(waitingForChunksEventReceived.get());
        assertFalse(failureEventReceived.get());
    } finally {
        FileUtils.deleteDirectory(tempDirectory.toFile());
    }
}

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From source file:jetbrains.buildServer.torrent.TorrentTransportTest.java

public void testCopyIfAlreadySeeding() throws IOException, InterruptedException, NoSuchAlgorithmException {
    setTorrentTransportEnabled();//from   www  . j  av a2s .  c o m
    setDownloadHonestly(true);

    final File storageDir = new File(myTempDir, "storageDir");
    storageDir.mkdir();
    final File downloadDir = new File(myTempDir, "downloadDir");
    downloadDir.mkdir();
    final File torrentsDir = new File(myTempDir, "torrentsDir");
    torrentsDir.mkdir();
    final String fileName = "MyBuild.31.zip";
    final File artifactFile = new File(storageDir, fileName);
    createTempFile(20250).renameTo(artifactFile);

    final File teamcityIvyFile = new File("agent/tests/resources/" + TorrentTransportFactory.TEAMCITY_IVY);
    myDownloadMap.put("/" + TorrentTransportFactory.TEAMCITY_IVY, teamcityIvyFile);
    final String ivyUrl = SERVER_PATH + TorrentTransportFactory.TEAMCITY_IVY;
    final File ivyFile = new File(myTempDir, TorrentTransportFactory.TEAMCITY_IVY);
    myTorrentTransport.downloadUrlTo(ivyUrl, ivyFile);
    Tracker tracker = new Tracker(6969);
    try {
        tracker.start(true);

        myDirectorySeeder.start(new InetAddress[] { InetAddress.getLocalHost() }, tracker.getAnnounceURI(), 5);

        final Torrent torrent = Torrent.create(artifactFile, tracker.getAnnounceURI(), "testplugin");
        final File torrentFile = new File(torrentsDir, fileName + ".torrent");
        torrent.save(torrentFile);
        myDirectorySeeder.getTorrentSeeder().seedTorrent(torrent, artifactFile);

        myDownloadMap.put("/.teamcity/torrents/" + fileName + ".torrent", torrentFile);
        final File targetFile = new File(downloadDir, fileName);
        final String digest = myTorrentTransport.downloadUrlTo(SERVER_PATH + fileName, targetFile);
        assertEquals(torrent.getHexInfoHash(), digest);
        assertTrue(FileUtils.contentEquals(artifactFile, targetFile));
    } finally {
        tracker.stop();
    }
}

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From source file:edu.cornell.med.icb.goby.modes.TestReformatCompactReadsMode.java

/**
 * Validates that setting a read length trim value will write the trimmed reads to
 * the output properly.// www .ja  v  a 2  s  .c  om
 *
 * @throws IOException if there is a problem reading or writing to the files
 */
public void trimReadLengthsAt23() throws IOException {
    final ReformatCompactReadsMode reformat = new ReformatCompactReadsMode();

    final String inputFilename = "test-data/compact-reads/s_1_sequence_short.compact-reads";
    reformat.setInputFilenames(inputFilename);
    final String outputFilename = "test-results/reformat-test-start.compact-reads";
    reformat.setOutputFile(outputFilename);
    reformat.execute();
    reformat.setTrimReadLength(23);

    final File inputFile = new File(inputFilename);
    final File outputFile = new File(outputFilename);
    assertFalse("The reformatted file should not be the same as the original",
            FileUtils.contentEquals(inputFile, outputFile));

    final ReadsReader reader = new ReadsReader(FileUtils.openInputStream(outputFile));
    assertTrue("There should be reads in this file", reader.hasNext());

    int readCount = 0;
    for (final Reads.ReadEntry entry : reader) {
        if (readCount == 0) {
            assertEquals("Reader returned the wrong sequence string",
                    "CTCATGTTCATACACCTNTCCCCCATTCTCCTCCT".subSequence(0, 22),
                    entry.getSequence().toString(Charset.defaultCharset().name()));
        }
        readCount++;
        assertEquals("Entry ", readCount + " was not trimmed", entry.getReadLength());
    }
    assertEquals("There should have been 73 entries in the reformatted file", 73, readCount);
}

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From source file:com.liferay.sync.engine.SyncSystemTest.java

protected void verifyFile(JsonNode stepJsonNode) throws Exception {
    boolean testPassed = true;

    String operation = getString(stepJsonNode, "operation", "exists");

    if (operation.equals("equals")) {
        List<File> files = new ArrayList<File>();

        JsonNode filesJsonNode = stepJsonNode.get("files");

        for (JsonNode fileJsonNode : filesJsonNode) {
            Path targetFilePath = getTargetFilePath(fileJsonNode);

            files.add(targetFilePath.toFile());
        }/*from   w  w w.  j a  v  a  2 s. c  o  m*/

        if (!FileUtils.contentEquals(files.get(0), files.get(1))) {
            testPassed = false;
        }
    } else if (operation.equals("exists")) {
        if (Files.notExists(getTargetFilePath(stepJsonNode))) {
            testPassed = false;
        }
    } else if (operation.equals("notExists")) {
        if (Files.exists(getTargetFilePath(stepJsonNode))) {
            testPassed = false;
        }
    }

    if (!testPassed) {
        Path testFileNameFilePath = _testFilePath.getFileName();

        Assert.fail("Test " + testFileNameFilePath.toString() + " failed.");
    }
}

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From source file:azkaban.project.JdbcProjectImplTest.java

@Test
public void testUploadFlowFile() throws Exception {
    final File testYamlFile = ExecutionsTestUtil.getFlowFile(BASIC_FLOW_YAML_DIR, BASIC_FLOW_FILE);
    this.loader.uploadFlowFile(PROJECT_ID, PROJECT_VERSION, testYamlFile, FLOW_VERSION);
    final File tempDir = Files.createTempDir();
    tempDir.deleteOnExit();//from  w w  w.j  a  v  a2s  .co m
    final File file = this.loader.getUploadedFlowFile(PROJECT_ID, PROJECT_VERSION, BASIC_FLOW_FILE,
            FLOW_VERSION, tempDir);
    assertThat(file.getName()).isEqualTo(BASIC_FLOW_FILE);
    assertThat(FileUtils.contentEquals(testYamlFile, file)).isTrue();
}

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From source file:edu.cornell.med.icb.goby.modes.TestReformatCompactReadsMode.java

/**
 * Validates that meta data are transfered by reformat.
 * The input file to this test was created with the following command:
 * goby 1g fasta-to-compact  -k key1 -v value1 -k key2 -v value2 test-data/fastx-test-data/test-fastq-1.fq -o test-data/compact-reads/with-meta-data-input.compact-reads
 *
 * @throws IOException if there is a problem reading or writing to the files
 *//*from   w  ww.j a  v  a2s. c  om*/
@Test
public void reformatTransferMetaData() throws IOException {
    final ReformatCompactReadsMode reformat = new ReformatCompactReadsMode();

    final String inputFilename = "test-data/compact-reads/with-meta-data-input.compact-reads";
    reformat.setInputFilenames(inputFilename);

    final String outputFilename = "test-results/with-meta-data-output.compact-reads";
    reformat.setOutputFile(outputFilename);
    reformat.execute();

    ReadsReader reader1 = new ReadsReader(inputFilename);
    for (Reads.ReadEntry it : reader1) {
        System.out.println(it.toString());
        System.out.println();
    }

    ReadsReader reader2 = new ReadsReader(outputFilename);
    for (Reads.ReadEntry it : reader2) {
        System.out.println(it.toString());
        System.out.println();
    }

    assertTrue(FileUtils.contentEquals(new File(inputFilename), new File(outputFilename)));

    final ReadsReader reader = new ReadsReader(FileUtils.openInputStream(new File(outputFilename)));
    assertTrue("There should be reads in this file", reader.hasNext());
    final Reads.ReadEntry entry = reader.next();
    assertNotNull("Entry should not be null", entry);
    Properties keyValuePairs = reader.getMetaData();

    assertEquals("key/value pairs must match", "value1", keyValuePairs.get("key1"));
    assertEquals("key/value pairs must match", "value2", keyValuePairs.get("key2"));

}

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From source file:com.streamsets.pipeline.stage.origin.remote.TestRemoteDownloadSource.java

@Test
public void testOverrunErrorArchiveFile() throws Exception {
    path = "remote-download-source/parseOverrun";
    setupSSHD(path, false);//from ww w.  j a  v  a  2s .c  o m
    File archiveDir = testFolder.newFolder();
    RemoteDownloadSource origin = new RemoteDownloadSource(
            getBean("sftp://localhost:" + String.valueOf(port) + "/", true, "testuser", "pass", null, null,
                    null, true, DataFormat.JSON, archiveDir.toString()));
    SourceRunner runner = new SourceRunner.Builder(RemoteDownloadSource.class, origin).addOutputLane("lane")
            .setOnRecordError(OnRecordError.TO_ERROR).build();
    runner.runInit();
    List<Record> expected = getExpectedRecords();
    Record record = RecordCreator.create();
    record.set(Field.create(new HashMap<String, Field>()));
    record.set("/name", Field.create("polarbear"));
    record.set("/age", Field.create("6"));
    record.set("/characterisitics", Field.create(Arrays.asList(Field.create("cool"), Field.create("cute"),
            Field.create("huge"), Field.create("round"), Field.create("playful"))));
    expected.add(record);
    StageRunner.Output op = runner.runProduce("-1", 1000);
    List<Record> actual = op.getRecords().get("lane");
    Assert.assertEquals(1, actual.size());
    System.out.println(actual.get(0).get());
    Assert.assertEquals(expected.get(0).get(), actual.get(0).get());
    Assert.assertEquals(1, archiveDir.listFiles().length);
    File expectedFile = new File(currentThread().getContextClassLoader()
            .getResource("remote-download-source/parseOverrun").getPath()).listFiles()[0];
    File actualFile = archiveDir.listFiles()[0];
    Assert.assertEquals(expectedFile.getName(), actualFile.getName());
    Assert.assertTrue(FileUtils.contentEquals(expectedFile, actualFile));
}

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From source file:com.spectralogic.ds3client.integration.GetJobManagement_Test.java

@Test(expected = AccessDeniedException.class)
public void testReadRetryBugFixWithUnwritableDirectory() throws IOException, URISyntaxException,
        NoSuchMethodException, IllegalAccessException, InvocationTargetException, InterruptedException {
    Assume.assumeFalse(iAmRoot());//from   ww w  .jav a  2s  . c  om

    final String tempPathPrefix = null;
    final Path tempDirectoryPath = Files.createTempDirectory(Paths.get("."), tempPathPrefix);

    final String tempDirectoryName = tempDirectoryPath.toString();

    if (org.apache.commons.lang3.SystemUtils.IS_OS_WINDOWS) {
        // Deny write data access to everyone, making the directory unwritable.
        Runtime.getRuntime().exec("icacls " + tempDirectoryName + " /deny Everyone:(WD)").waitFor();
    } else {
        Runtime.getRuntime().exec("chmod -w " + tempDirectoryName).waitFor();
    }

    try {
        disableWritePermissionForRoot(tempDirectoryName);

        final String DIR_NAME = "largeFiles/";
        final String FILE_NAME = "lesmis-copies.txt";

        final Path objPath = ResourceUtils.loadFileResource(DIR_NAME + FILE_NAME);
        final long bookSize = Files.size(objPath);
        final Ds3Object obj = new Ds3Object(FILE_NAME, bookSize);

        final Ds3ClientShim ds3ClientShim = new Ds3ClientShim((Ds3ClientImpl) client);

        final int maxNumBlockAllocationRetries = 1;
        final int maxNumObjectTransferAttempts = 3;
        final Ds3ClientHelpers ds3ClientHelpers = Ds3ClientHelpers.wrap(ds3ClientShim,
                maxNumBlockAllocationRetries, maxNumObjectTransferAttempts);

        final Ds3ClientHelpers.Job readJob = ds3ClientHelpers.startReadJob(BUCKET_NAME, Arrays.asList(obj));

        final GetJobSpectraS3Response jobSpectraS3Response = ds3ClientShim
                .getJobSpectraS3(new GetJobSpectraS3Request(readJob.getJobId()));

        assertThat(jobSpectraS3Response.getMasterObjectListResult(), is(notNullValue()));

        readJob.transfer(new FileObjectGetter(tempDirectoryPath));

        final File originalFile = ResourceUtils.loadFileResource(DIR_NAME + FILE_NAME).toFile();
        final File fileCopiedFromBP = Paths.get(tempDirectoryPath.toString(), FILE_NAME).toFile();
        assertTrue(FileUtils.contentEquals(originalFile, fileCopiedFromBP));
    } finally {
        enableWritePermissionForRoot(tempDirectoryName);

        if (org.apache.commons.lang3.SystemUtils.IS_OS_WINDOWS) {
            // Grant write data access to everyone, so we can delete the directory
            Runtime.getRuntime().exec("icacls " + tempDirectoryName + " /grant Everyone:(WD)").waitFor();
        } else {
            Runtime.getRuntime().exec("chmod +w " + tempDirectoryName).waitFor();
        }
        FileUtils.deleteDirectory(tempDirectoryPath.toFile());
    }
}

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