Example usage for org.apache.commons.io FilenameUtils concat

List of usage examples for org.apache.commons.io FilenameUtils concat

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Introduction

In this page you can find the example usage for org.apache.commons.io FilenameUtils concat.

Prototype

public static String concat(String basePath, String fullFilenameToAdd)

Source Link

Document

Concatenates a filename to a base path using normal command line style rules.

Usage

From source file:edu.cornell.med.icb.goby.readers.sam.TestGobyPaperTop5000s.java

/**
 * Setup the filenames for a RoundTripAlignment in a standard fashion for the 5000 tests.
 * @param input the input sam/bam filename. Should end with .sam, .bam, or .sam.gz
 * @return a RoundTripAlignment with input and output filenames configured
 *///from   w w w . j  a  va 2  s .  c o m
private RoundTripAlignment setupRoundTrip(final String input) {
    final String basename;
    if (input.toLowerCase().endsWith(".gz")) {
        basename = FilenameUtils.getBaseName(FilenameUtils.getBaseName(input));
    } else {
        basename = FilenameUtils.getBaseName(input);
    }
    final RoundTripAlignment rtc = new RoundTripAlignment();
    rtc.sourceBamFilename = FilenameUtils.concat(BASE_TEST_INPUT_DIR, input);
    rtc.destGobyBasename = FilenameUtils.concat(BASE_TEST_OUTPUT_DIR, basename);
    rtc.destBamFilename = FilenameUtils.concat(BASE_TEST_OUTPUT_DIR, basename + ".sam");
    return rtc;
}

From source file:com.enioka.jqm.tools.MulticastPrintStream.java

void registerThread(String fileName) {
    try {/*w  w w .  jav  a  2s.c om*/
        unregisterThread();
        Writer w = new FileWriter(FilenameUtils.concat(rootLogDir, fileName), true);
        logger.set(new BufferedWriter(w));
    } catch (IOException e) {
        // A PrintStream is supposed to never throw IOException
        jqmlogger.warn("could not register specific logger for a thread. Stdout will be used instead.", e);
    }
}

From source file:net.bpelunit.framework.base.BPELUnitBaseRunner.java

@Override
public void configureDeployers() throws ConfigurationException {
    String deploymentConfigFile = FilenameUtils.concat(fHomeDirectory,
            FilenameUtils.concat(CONFIG_DIR, DEPLOYER_CONFIG_FILE_NAME));

    if ((deploymentConfigFile != null) && (new File(deploymentConfigFile).exists())) {
        try {//from  w  w w .j  a v  a 2  s .  c  o  m
            ExtensionRegistry.loadDeploymentConfiguration(new File(deploymentConfigFile).toURI().toURL());
        } catch (MalformedURLException e) {
            throw new ConfigurationException(
                    "BPELUnit could not locate the deployer config file: " + deploymentConfigFile, e);
        }
    } else {
        // if file could not be loaded, default to embedded settings
        ExtensionRegistry.loadDeploymentConfiguration(
                this.getClass().getResource('/' + CONFIG_DIR + '/' + DEPLOYER_CONFIG_FILE_NAME));
    }
}

From source file:edu.cornell.med.icb.goby.alignments.TestReadWriteAlignments.java

@Test
public void readWriteEntries101() throws IOException {
    final AlignmentWriterImpl writer = new AlignmentWriterImpl(
            FilenameUtils.concat(BASE_TEST_DIR, "align-101"));
    writer.setNumAlignmentEntriesPerChunk(1000);
    final int numReads = 2000;
    final int numTargets = 10;
    int numExpected = 0;
    int position = 1;
    for (int referenceIndex = 0; referenceIndex < numTargets; referenceIndex++) {
        for (int queryIndex = 0; queryIndex < numReads; queryIndex++) {
            writer.setAlignmentEntry(queryIndex, referenceIndex, position++, 30, false, constantQueryLength);
            writer.appendEntry();//from   w w w  .j  a va  2s. c  o  m
            numExpected++;
        }
    }

    writer.close();
    writer.printStats(System.out);

    int count = 0;
    final AlignmentReader reader = new AlignmentReaderImpl(FilenameUtils.concat(BASE_TEST_DIR, "align-101"));
    int maxQueryIndex = -1;
    int maxTargetIndex = -1;
    reader.readHeader();
    while (reader.hasNext()) {
        final Alignments.AlignmentEntry alignmentEntry = reader.next();
        assert alignmentEntry.hasPosition();
        maxQueryIndex = Math.max(maxQueryIndex, alignmentEntry.getQueryIndex());
        maxTargetIndex = Math.max(maxTargetIndex, alignmentEntry.getTargetIndex());
        count++;
    }
    assertEquals(numExpected, count);
    assertEquals("number of queries must match", numReads - 1, maxQueryIndex);
    assertEquals("number of targets must match", numTargets - 1, maxTargetIndex);

}

From source file:com.gemstone.gemfire.management.internal.configuration.ZipUtilsJUnitTest.java

@Test
public void testZipUtils() throws Exception {
    File sf = new File(sourceFolderName);
    File cf = new File(FilenameUtils.concat(sourceFolderName, clusterFolderName));
    File gf = new File(FilenameUtils.concat(sourceFolderName, groupFolderName));
    sf.mkdir();//from ww  w. j  ava  2 s. c  om
    cf.mkdir();
    gf.mkdir();
    FileUtils.writeStringToFile(new File(FilenameUtils.concat(cf.getCanonicalPath(), clusterTextFileName)),
            clusterText);
    FileUtils.writeStringToFile(new File(FilenameUtils.concat(gf.getCanonicalPath(), groupTextFileName)),
            groupText);
    ZipUtils.zip(sourceFolderName, zipFileName);
    File zipFile = new File(zipFileName);
    assertTrue(zipFile.exists());
    assertTrue(zipFile.isFile());
    ZipUtils.unzip(zipFileName, destinationFolderName);

    File df = new File(destinationFolderName);
    assertTrue(df.exists());
    assertTrue(df.isDirectory());

    File[] subDirs = df.listFiles();
    assertTrue((subDirs != null) && (subDirs.length != 0));
    File dfClusterTextFile = new File(FilenameUtils.concat(destinationFolderName,
            clusterFolderName + File.separator + clusterTextFileName));
    File dfGroupTextFile = new File(
            FilenameUtils.concat(destinationFolderName, groupFolderName + File.separator + groupTextFileName));

    assertTrue(clusterText.equals(FileUtils.readFileToString(dfClusterTextFile)));
    assertTrue(groupText.equals(FileUtils.readFileToString(dfGroupTextFile)));
}

From source file:edu.cornell.med.icb.goby.stats.TestStatsWriter.java

@Test
public void testVCF() throws IOException {

    final String file = FilenameUtils.concat(BASE_TEST_DIR, "1.vcf");

    VCFWriter writer = new VCFWriter(new PrintWriter(new FileWriter(file)));

    int fieldC = writer.defineField("INFO", "C", 1, ColumnType.String, "something about C");
    int fieldD = writer.defineField("INFO", "D", 1, ColumnType.String, "something about D");

    writer.writeHeader();/* w w w. jav  a2  s .  c o  m*/
    writer.setInfo(fieldC, "1");
    writer.setInfo(fieldD, "dvalue");
    writer.writeRecord();
    writer.close();

    assertEquals(new File("test-data/stats-writer/1.vcf"), new File("test-results/stats-writer/1.vcf"));
}

From source file:com.redhat.victims.VictimsResultCache.java

public VictimsResultCache() throws VictimsException {
    location = FilenameUtils.concat(VictimsConfig.home().toString(), CACHE_NAME);
    File cache = new File(location);
    if (!cache.exists()) {
        create(cache);//from w  w  w .  ja  va2 s .c om
    } else if (VictimsConfig.purgeCache() && !purged) {
        purge();
        // make sure that another instance does not purge again
        purged = true;
    }
}

From source file:ddf.content.plugin.video.TestVideoThumbnailPlugin.java

@Before
public void setUp() throws IOException, MimeTypeParseException, URISyntaxException {
    System.setProperty("ddf.home", SystemUtils.USER_DIR);

    binaryPath = FilenameUtils.concat(System.getProperty("ddf.home"), "bin_third_party");

    setUpMockBundleContext();/*ww  w  .  j a v  a 2 s  . c o  m*/

    videoThumbnailPlugin = new VideoThumbnailPlugin(mockBundleContext);
}

From source file:net.sf.jvifm.util.AutoCompleteUtil.java

public static List<File> getFileCompleteList(String pwd, String path, boolean onlyDir) {
    List<File> list = new ArrayList<File>();
    String fileName = new File(path).getName();

    if (path.endsWith(":"))
        return null;

    File file = new File(FilenameUtils.concat(pwd, path));

    File pwdFile = null;//  w  ww.  j  av a 2 s .c  o  m
    pwdFile = file;
    if (path.endsWith(File.separator) || path.trim().equals("")) {
        pwdFile = file;
    } else {
        if (file.getParent() == null)
            return null;
        pwdFile = new File(file.getParent());
    }
    if (!pwdFile.exists())
        return null;
    File[] files = pwdFile.listFiles((FileFilter) Util.getDefaultFileFilter());

    if (files == null || files.length <= 0)
        return null;
    boolean lowerCase = false;
    if (fileName.toLowerCase().equals(fileName)) {
        lowerCase = true;
    }
    for (int i = 0; i < files.length; i++) {
        String tmpFileName = files[i].getName();
        if (lowerCase)
            tmpFileName = tmpFileName.toLowerCase();
        if (tmpFileName.startsWith(fileName) || path.endsWith(File.separator)
                || FilenameUtils.wildcardMatch(tmpFileName, fileName, IOCase.INSENSITIVE))
            if (onlyDir) {
                if (files[i].isDirectory())
                    list.add(files[i]);
            } else {
                list.add(files[i]);
            }
    }
    if (list.size() <= 0)
        return null;
    return list;
}

From source file:fr.mby.portal.coreimpl.configuration.PropertiesConfigurationManager.java

@Override
public PropertiesConfiguration initConfiguration(final String key, final Class<?> valueType, final String tag)
        throws IllegalArgumentException, ConfigurationException {
    Assert.hasText(key, "No key provided !");
    if (this.configurationByKey.containsKey(key)) {
        throw new IllegalArgumentException("Configuration element already initialized for key: " + key + " !");
    }//from   www.  j  ava  2 s.  c  o m
    Assert.notNull(valueType, "No value type provided !");
    Assert.hasText(tag, "No tag provided !");

    final String propertiesFileName = FilenameUtils.concat(this.configFileDirectory, key + ".properties");
    final File propertiesFile = new File(propertiesFileName);
    final PropertiesConfiguration config = new PropertiesConfiguration(propertiesFile);
    this.configurationByKey.put(key, config);
    this.valueTypeByKey.put(key, valueType);

    this.tagConfigurationKey(key, tag);

    return config;
}