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

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.algorithmic.algorithm.TestAccumulate.java

@Test
public void testBaseCountPipeLine() throws IOException {
    final String basename = FilenameUtils.concat(testDir, "align-reads");
    AlignmentWriterImpl alignmentWriter = null;
    try {//  w  ww. j ava2s. c o m
        int constantQueryLength = 40;
        alignmentWriter = new AlignmentWriterImpl(basename);
        Alignments.AlignmentEntry.Builder currentEntry = alignmentWriter.getAlignmentEntry();
        currentEntry.setScore(30);
        currentEntry.setPosition(5);
        currentEntry.setQueryIndex(1);
        currentEntry.setTargetIndex(1);
        currentEntry.setMatchingReverseStrand(false);
        currentEntry.setQueryAlignedLength(5);
        currentEntry.setQueryLength(constantQueryLength);
        alignmentWriter.appendEntry();

        currentEntry = alignmentWriter.getAlignmentEntry();
        currentEntry.setScore(30);
        currentEntry.setPosition(3);
        currentEntry.setQueryIndex(1);
        currentEntry.setTargetIndex(1);
        currentEntry.setMatchingReverseStrand(false);
        currentEntry.setQueryAlignedLength(5);
        currentEntry.setQueryLength(constantQueryLength);
        alignmentWriter.appendEntry();

        currentEntry = alignmentWriter.getAlignmentEntry();
        currentEntry.setScore(30);
        currentEntry.setPosition(3);
        currentEntry.setQueryIndex(1);
        currentEntry.setTargetIndex(1);
        currentEntry.setMatchingReverseStrand(false);
        currentEntry.setQueryAlignedLength(4);
        currentEntry.setQueryLength(constantQueryLength);
        alignmentWriter.appendEntry();

        currentEntry = alignmentWriter.getAlignmentEntry();
        currentEntry.setScore(30);
        currentEntry.setPosition(8);
        currentEntry.setQueryIndex(1);
        currentEntry.setTargetIndex(1);
        currentEntry.setMatchingReverseStrand(false);
        currentEntry.setQueryAlignedLength(4);
        currentEntry.setQueryLength(constantQueryLength);
        alignmentWriter.appendEntry();

        alignmentWriter.printStats(System.out);
    } finally {
        if (alignmentWriter != null) {
            try {
                alignmentWriter.close();
            } catch (IOException e) { // NOPMD
                // nothing to do - ignore
            }
        }
    }

    alignmentWriter.printStats(System.out);

    AlignmentReader alignmentReader = null;
    try {
        alignmentReader = new AlignmentReaderImpl(basename);
        computeCount.startPopulating();
        while (alignmentReader.hasNext()) {
            final Alignments.AlignmentEntry alignmentEntry = alignmentReader.next();
            final int startPosition = alignmentEntry.getPosition();
            final int alignmentLength = alignmentEntry.getQueryAlignedLength();
            LOG.debug("start " + startPosition + " length " + alignmentLength);
            // shifted the ends populating by 1
            computeCount.populate(startPosition, startPosition + alignmentLength);
        }
    } finally {
        if (alignmentReader != null) {
            alignmentReader.close();
        }
    }
    final String countsFile = FilenameUtils.concat(testDir, "align-count");
    CountsWriterI countsWriterI = null;
    CountsReader countsReader = null;
    try {
        countsWriterI = new CountsWriter(new FileOutputStream(countsFile));
        computeCount.accumulate();
        computeCount.baseCount(countsWriterI);
        countsReader = new CountsReader(new FileInputStream(countsFile));
        final int[] exp = { 0, 0, 0, 2, 2, 3, 3, 3, 3, 2, 2, 1, 1 };
        int i = 0;
        while (countsReader.hasNextPosition()) {
            assertEquals(exp[i], countsReader.nextCountAtPosition());
            i++;
        }
    } finally {
        if (countsWriterI != null) {
            try {
                countsWriterI.close();
            } catch (IOException e) { // NOPMD
                // nothing to do - ignore
            }
        }

        if (countsReader != null) {
            try {
                countsReader.close();
            } catch (IOException e) { // NOPMD
                // nothing to do - ignore
            }
        }
    }
}

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From source file:com.blueverdi.rosietheriveter.AlbumPageFactory.java

private String getBitmapName(String filename) {
    return FilenameUtils.concat(imageSource, filename);
}

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From source file:com.xiaomi.linden.cluster.ShardClient.java

public ShardClient(final ZkClient zkClient, final String zk, final String path,
        final LindenService.ServiceIface localClient, final int localPort, final int shardId) {
    this.zk = zk;
    this.path = path;
    this.localClient = localClient;
    this.shardId = shardId;
    this.localHostPort = String.format("%s:%s", CommonUtils.getLocalHost(), localPort);

    // if the path does not exist, create it.
    // the path may be created later, so the listener will not work
    // and the isAvailable will always be false.
    if (!zkClient.exists(path)) {
        zkClient.createPersistent(path, true);
    }//from   w w w . j a v a 2 s  . c  om

    List<String> children = zkClient.getChildren(path);
    final Map<String, Map.Entry<String, LindenService.ServiceIface>> lindenClients = new ConcurrentHashMap<>();
    zkClient.subscribeChildChanges(path, new LindenZKListener(path, children) {
        @Override
        public void onChildChange(String parent, List<String> children, List<String> newAdded,
                List<String> deleted) {
            for (String node : newAdded) {
                String fullPath = FilenameUtils.separatorsToUnix(FilenameUtils.concat(path, node));
                byte[] bytes = zkClient.readData(fullPath);

                ServiceInstance instance = JSONObject.parseObject(new String(bytes), ServiceInstance.class);
                String hostPort = String.format("%s:%s", instance.getServiceEndpoint().getHost(),
                        instance.getServiceEndpoint().getPort());
                if (localHostPort.equals(hostPort)) {
                    haslocalClient = true;
                    lindenClients.put(node, new AbstractMap.SimpleEntry<>(hostPort, localClient));
                    LOGGER.info("Linden local node {} {} joined shard {}.", node, hostPort, shardId);
                } else {
                    LindenService.ServiceIface client = Thrift.newIface(hostPort,
                            LindenService.ServiceIface.class);
                    lindenClients.put(node, new AbstractMap.SimpleEntry<>(hostPort, client));
                    LOGGER.info("Linden node {} {} joined shard {}.", node, hostPort, shardId);
                }
            }
            for (String node : deleted) {
                if (lindenClients.containsKey(node)) {
                    String hostPort = lindenClients.get(node).getKey();
                    lindenClients.remove(node);
                    LOGGER.info("Linden node {} {} left shard {}.", node, hostPort, shardId);
                }
            }

            // ensure the new node overrides the old node.
            List<String> sortedNodes = new ArrayList<>();
            for (String node : lindenClients.keySet()) {
                sortedNodes.add(node);
            }
            Collections.sort(sortedNodes, Collections.reverseOrder());

            Set<String> uniqueClients = new HashSet<>();
            for (String node : sortedNodes) {
                String hostPort = lindenClients.get(node).getKey();
                if (uniqueClients.contains(hostPort)) {
                    lindenClients.remove(node);
                    LOGGER.warn("Linden node {} {} is duplicated in shard {}, removed!", node, hostPort,
                            shardId);
                } else {
                    uniqueClients.add(hostPort);
                }
            }

            LOGGER.info("{} Linden node in shard {}.", lindenClients.size(), shardId);
            List<Map.Entry<String, LindenService.ServiceIface>> tempClients = new ArrayList<>();
            for (String node : lindenClients.keySet()) {
                tempClients.add(lindenClients.get(node));
                String hostPort = lindenClients.get(node).getKey();
                LOGGER.info("Linden node {} {} on service in shard {}.", node, hostPort, shardId);
            }
            clients = tempClients;
        }
    });
}

---

From source file:com.zappy.purefit6.service.WeekFacadeREST.java

/**
 * Edit week program.//from   www .ja  v a 2s . c  o m
 * @param id                    Id of week to edit  URL
 * @param uploadedInputStream   Image   FORM
 * @param fileDetail            Image   FORM
 * @param name                  Weekly program name
 */
@PUT
@Path("{id}")
@Consumes(MediaType.MULTIPART_FORM_DATA)
public void edit(@PathParam("id") Integer id, @FormDataParam("image") InputStream uploadedInputStream,
        @FormDataParam("image") FormDataContentDisposition fileDetail, @FormDataParam("name") String name) {
    try {
        //Copy file
        File destination = new File(
                FilenameUtils.concat("/home/gianksp/Desktop/test/week", fileDetail.getFileName()));
        FileUtils.copyInputStreamToFile(uploadedInputStream, destination);
        //Create element
        Week week = new Week();
        week.setIdWeek(id);
        week.setName(name);
        week.setImagePath(destination.getAbsolutePath());
        //Store element
        super.edit(week);
    } catch (IOException ex) {
        log.log(Level.SEVERE, "Unable to import week program image " + " .name:" + name + " .fileName:"
                + fileDetail.getName(), ex);
    } catch (Exception ex) {
        log.log(Level.SEVERE, "Unable to create week program " + " .name:" + name, ex);
    }
}

---

From source file:biz.dfch.j.graylog2.plugin.filter.dfchBizExecScript.java

public dfchBizExecScript() throws IOException, URISyntaxException {
    try {// w  ww .ja  v a2s  . c o m
        LOG.debug(String.format("*** [%d] %s: Initialising plugin ...\r\n", Thread.currentThread().getId(),
                DF_PLUGIN_NAME));

        // get config file
        CodeSource codeSource = this.getClass().getProtectionDomain().getCodeSource();
        URI uri = codeSource.getLocation().toURI();

        // String path = uri.getSchemeSpecificPart();
        // path would contain absolute path including jar file name with extension
        // String path = FilenameUtils.getPath(uri.getPath());
        // path would contain relative path (no leadig '/' and no jar file name

        String path = FilenameUtils.getPath(uri.getPath());
        if (!path.startsWith("/")) {
            path = String.format("/%s", path);
        }
        String baseName = FilenameUtils.getBaseName(uri.getSchemeSpecificPart());
        if (null == baseName || baseName.isEmpty()) {
            baseName = this.getClass().getPackage().getName();
        }

        // get config values
        configurationFileName = FilenameUtils.concat(path, baseName + ".conf");
        JSONParser jsonParser = new JSONParser();
        Object object = jsonParser.parse(new FileReader(configurationFileName));

        JSONObject jsonObject = (JSONObject) object;
        String scriptEngine = (String) jsonObject.get(DF_SCRIPT_ENGINE);
        String scriptPathAndName = (String) jsonObject.get(DF_SCRIPT_PATH_AND_NAME);
        if (null == scriptPathAndName || scriptPathAndName.isEmpty()) {
            scriptPathAndName = FilenameUtils.concat(path, (String) jsonObject.get(DF_SCRIPT_NAME));
        }
        Boolean scriptCacheContents = (Boolean) jsonObject.get(DF_SCRIPT_CACHE_CONTENTS);
        Boolean scriptDisplayOutput = (Boolean) jsonObject.get(DF_SCRIPT_DISPLAY_OUTPUT);
        String pluginPriority = (String) jsonObject.get(DF_PLUGIN_PRIORITY);
        Boolean pluginDropMessage = (Boolean) jsonObject.get(DF_PLUGIN_DROP_MESSAGE);
        Boolean pluginDisabled = (Boolean) jsonObject.get(DF_PLUGIN_DISABLED);

        // set configuration
        Map<String, Object> map = new HashMap<>();
        map.put(DF_SCRIPT_ENGINE, scriptEngine);
        map.put(DF_SCRIPT_PATH_AND_NAME, scriptPathAndName);
        map.put(DF_SCRIPT_DISPLAY_OUTPUT, scriptDisplayOutput);
        map.put(DF_SCRIPT_CACHE_CONTENTS, scriptCacheContents);
        map.put(DF_PLUGIN_PRIORITY, pluginPriority);
        map.put(DF_PLUGIN_DROP_MESSAGE, pluginDropMessage);
        map.put(DF_PLUGIN_DISABLED, pluginDisabled);

        initialize(new Configuration(map));
    } catch (IOException ex) {
        LOG.error(String.format("*** [%d] %s: Initialising plugin FAILED. Filter will be disabled.\r\n%s\r\n",
                Thread.currentThread().getId(), DF_PLUGIN_NAME, ex.getMessage()));
        LOG.error("*** " + DF_PLUGIN_NAME + "::dfchBizExecScript() - IOException - Filter will be disabled.");
        ex.printStackTrace();
    } catch (Exception ex) {
        LOG.error(String.format("*** [%d] %s: Initialising plugin FAILED. Filter will be disabled.\r\n",
                Thread.currentThread().getId(), DF_PLUGIN_NAME));
        LOG.error("*** " + DF_PLUGIN_NAME + "::dfchBizExecScript() - Exception - Filter will be disabled.");
        ex.printStackTrace();
    }
}

---

From source file:cop.maven.plugins.AbstractRamlConfigMojoTest.java

@Test
public void shouldReturnYamlFileWhenYamlOptionSet() throws Exception {
    setYaml(mojo, "raml.yml");
    File dir = TestUtils.createTempDir();
    String path = TestUtils.createTempFile(dir, "raml.yml").getParentFile().getAbsolutePath();

    setBuildResources(mojo, new ArrayList<Resource>() {
        {/* w w w  .jav a  2 s . co m*/
            add(TestUtils.createResource(TestUtils.createTempDir(dir, "foo").getAbsolutePath()));
            add(TestUtils.createResource(path));
        }
    });

    assertThat(getYaml(mojo).getAbsolutePath()).isEqualTo(FilenameUtils.concat(path, "raml.yml"));
    assertThat(((LogMock) mojo.getLog()).getInfoContent()).startsWith("found raml configuration file");
}

---

From source file:es.urjc.mctwp.image.impl.collection.fs.ImageContentCollectionFSImpl.java

/**
 * Create a subdirectory for store dicom files
 * //from ww  w. j  a v  a2 s.  c om
 * @param name
 */
public void createCollection(String name) throws ImageCollectionException {

    if ((name != null) && (name.length() > 0)) {
        File temp = new File(FilenameUtils.concat(basedir.getAbsolutePath(), name));

        if (temp.exists()) {
            String error = "Collection [" + name + "] already exists";
            logger.error(error);
            throw new ImageCollectionException(error);
        } else {
            try {
                temp.mkdir();
            } catch (Exception e) {
                logger.error(e.getMessage());
                throw new ImageCollectionException(e);
            }
        }
    } else {
        String error = "Can't create collection, given name is null or empty";
        logger.error(error);
        throw new ImageCollectionException(error);
    }
}

---

From source file:com.r573.enfili.common.io.file.PathBuilder.java

public String toPath() {
    String path = prefix;
    for (String element : elements) {
        path = FilenameUtils.concat(path, element);
    }
    return path;
}

---

From source file:net.sf.jvifm.model.FileModelManager.java

public void rename(String srcName, String destName, String path) {
    File file = new File(path);
    String parent = file.getParent();

    String newName = file.getName().replaceAll(srcName, destName);
    if (parent != null) {
        file.renameTo(new File(FilenameUtils.concat(parent, newName)));
    } else {/*from  www .ja v a 2  s .  c o m*/
        file.renameTo(new File(newName));
    }
}

---

From source file:net.leegorous.jsc.JSC.java

private void addClasspath(JsContextManager mgr, String rootPath, String cp) {
    if (cp == null)
        return;/*from w  w w  .  j  ava  2s  .c o m*/
    List classpath = (List) cpMap.get(cp);
    if (classpath != null)
        return;
    List cps = normalizePath(cp);
    List result = new ArrayList();
    for (Iterator it = cps.iterator(); it.hasNext();) {
        String str = (String) it.next();
        File f = new File(getRealPath("/" + str));
        if (f.exists()) {
            mgr.addClasspath(f);
            result.add(f.getAbsoluteFile());
            continue;
        }
        String path = FilenameUtils.concat(rootPath, str);
        mgr.addClasspath(path);
        result.add(path);
    }
    cpMap.put(cp, result);
}

---

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