Example usage for java.nio.file Path toString

List of usage examples for java.nio.file Path toString

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Introduction

In this page you can find the example usage for java.nio.file Path toString.

Prototype

String toString();

Source Link

Document

Returns the string representation of this path.

Usage

From source file:com.compomics.colims.distributed.playground.AnnotatedSpectraParser.java

/**
 * Parse the APL files for given aplKeys and put the peaks in the spectrumPeaks list.
 *///from  ww  w.  j a  va2  s  . c  o m
private void parseAplFile() throws IOException {
    for (Path aplFilePath : aplFilePaths.keySet()) {
        if (!Files.exists(aplFilePath)) {
            throw new FileNotFoundException(
                    "The apl spectrum file " + aplFilePath.toString() + " could not be found.");
        }
        try (BufferedReader bufferedReader = Files.newBufferedReader(aplFilePath)) {
            String line;
            Map<String, String> headers = new HashMap<>();

            while ((line = bufferedReader.readLine()) != null) {
                //look for a spectrum entry
                if (line.startsWith(APL_SPECTUM_START)) {
                    //go to the next line
                    line = bufferedReader.readLine();
                    //parse spectrum header part
                    while (!Character.isDigit(line.charAt(0))) {
                        String[] split = line.split(APL_HEADER_DELIMITER);
                        headers.put(split[0], split[1]);
                        line = bufferedReader.readLine();
                    }
                    //" Precursor: 0 _multi_" is removed before looking up the key in the spectra map
                    String header = org.apache.commons.lang3.StringUtils
                            .substringBefore(headers.get(APL_HEADER), " Precursor");
                    //check if the spectrum was identified and therefore can be found in the spectra map
                    if (aplKeys.contains(header)) {
                        List<Peak> peakList = new ArrayList<>();
                        while (!line.startsWith(APL_SPECTUM_END)) {
                            String[] splitLine = line.split(MaxQuantConstants.PARAM_TAB_DELIMITER.value());
                            Peak peak = new Peak(Double.parseDouble(splitLine[0]),
                                    Double.parseDouble(splitLine[1]));

                            peakList.add(peak);
                            line = bufferedReader.readLine();
                        }
                        spectrumPeaks.put(header, peakList);
                    }
                    //clear headers map
                    headers.clear();
                }
            }
        }
    }
}

From source file:com.romeikat.datamessie.core.base.util.FileUtil.java

public synchronized Path createXlsxFile(final Path dir, final String filename,
        final SXSSFWorkbook xlsxWorkbook) {
    return Paths.get(createXlsxFile(dir.toString(), filename, xlsxWorkbook).getAbsolutePath());
}

From source file:com.spectralogic.ds3client.helpers.FileObjectPutter_Test.java

@Test
public void testThatFileReportsAsRegularOnWindows() throws IOException, InterruptedException {
    Assume.assumeTrue(Platform.isWindows());

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

    final String A_FILE_NAME = "aFile.txt";

    final AtomicBoolean caughtException = new AtomicBoolean(false);

    try {/*from ww w.j a  va 2s .co  m*/
        Files.createFile(Paths.get(tempDirectory.toString(), A_FILE_NAME));
        new FileObjectPutter(tempDirectory).buildChannel(A_FILE_NAME);
    } catch (final UnrecoverableIOException e) {
        assertTrue(e.getMessage().contains(A_FILE_NAME));
        caughtException.set(true);
    } finally {
        FileUtils.deleteDirectory(tempDirectory.toFile());
    }

    assertFalse(caughtException.get());
}

From source file:functionaltests.job.workingdir.TestForkedTaskWorkingDir.java

private void javaTaskTaskRestartedAnotherNode() throws Exception {
    FileLock blockTaskFromTest = new FileLock();
    Path blockTaskFromTestPath = blockTaskFromTest.lock();

    FileLock blockTestBeforeKillingNode = new FileLock();
    Path blockTestBeforeKillingNodePath = blockTestBeforeKillingNode.lock();

    TaskFlowJob job = createFileInLocalSpaceJob(blockTaskFromTestPath.toString(),
            blockTestBeforeKillingNodePath.toString());

    JobId idJ1 = schedulerHelper.submitJob(job);

    SchedulerTHelper.log("Wait until task is in the middle of the run");
    final String taskNodeUrl = findNodeRunningTask();
    schedulerHelper.waitForEventTaskRunning(idJ1, "task1");
    FileLock.waitUntilUnlocked(blockTestBeforeKillingNodePath);

    SchedulerTHelper.log("Kill the node running the task");
    schedulerHelper.killNode(taskNodeUrl);

    SchedulerTHelper.log("Let the task finish");
    blockTaskFromTest.unlock();/*w  w  w .jav a 2 s  . com*/

    SchedulerTHelper.log("Waiting for job 1 to finish");
    schedulerHelper.waitForEventJobFinished(idJ1);

    String userSpaceUri = URI.create(schedulerHelper.getSchedulerInterface().getUserSpaceURIs().get(0))
            .getPath();
    assertTrue("Could not find expected output file", new File(userSpaceUri, "output_file.txt").exists());
}

From source file:fr.ortolang.diffusion.client.cmd.CheckBagCommand.java

private void checkSnapshotMetadata(Path root) {
    Path metadata = Paths.get(root.toString(), "metadata");
    try {// ww w. j ava  2 s  .c  om
        Files.walkFileTree(metadata, new FileVisitor<Path>() {

            @Override
            public FileVisitResult preVisitDirectory(Path dir, BasicFileAttributes attrs) throws IOException {
                return FileVisitResult.CONTINUE;
            }

            @Override
            public FileVisitResult visitFile(Path file, BasicFileAttributes attrs) throws IOException {
                Path target = Paths.get(root.toString(), "objects",
                        metadata.relativize(file.getParent()).toString());
                if (!Files.exists(target)) {
                    errors.append("-> unexisting target for metadata: ").append(file).append("\r\n");
                    if (fix) {
                        try {
                            Files.delete(file);
                            fixed.append("-> deleted metadata: ").append(file).append("\r\n");
                        } catch (IOException e) {
                            errors.append("-> unable to fix: ").append(e.getMessage()).append("\r\n");
                        }
                    }
                } else if (file.endsWith("ortolang-item-json")) {
                    checkOrtolangItemJson(file);
                }
                return FileVisitResult.CONTINUE;
            }

            @Override
            public FileVisitResult visitFileFailed(Path file, IOException exc) throws IOException {
                return FileVisitResult.CONTINUE;
            }

            @Override
            public FileVisitResult postVisitDirectory(Path dir, IOException exc) throws IOException {
                return FileVisitResult.CONTINUE;
            }

        });
    } catch (IOException e) {
        System.out.println("Unable to walk file tree: " + e.getMessage());
    }
}

From source file:it.greenvulcano.configuration.BaseConfigurationManager.java

@Override
public void delete(String name) throws IOException, FileNotFoundException {
    Path configurationPath = getConfigurationPath(name);
    if (!Files.deleteIfExists(configurationPath)) {
        throw new FileNotFoundException(configurationPath.toString());
    }/* w w  w .  ja  v a2s.c  om*/
}

From source file:eu.forgetit.middleware.component.Contextualizer.java

private List<File> getFilteredDocumentList(Path contentPath) {

    List<File> filteredDocuments = new ArrayList<>();

    File contentDir = new File(contentPath.toString());

    String[] contentFiles = contentDir.list();

    if (contentFiles == null || contentFiles.length == 0)
        return filteredDocuments;

    List<String> formatList = Arrays.asList(
            ConfigurationManager.getConfiguration().getStringArray("contextualizer.context.analysis.formats"));

    logger.debug("Accepted document formats:" + formatList);

    String format = null;/*from  w  ww .  j  av  a  2s .  co  m*/

    Tika tika = new Tika();

    for (String file : contentFiles) {

        format = tika.detect(file);

        logger.debug("Found file in content dir: " + file + " (" + format + ")");

        if (formatList.contains(format)) {

            filteredDocuments.add(new File(contentDir, file));
            logger.debug("New document added to list: " + contentDir + "/" + file);

        }

    }

    return filteredDocuments;

}

From source file:com.bekwam.resignator.commands.UnsignCommand.java

private void repackJAR(Path targetJARFilePath, Path appDir) throws CommandExecutionException {
    Preconditions.checkNotNull(activeConfiguration.getJarCommand());
    String[] cmdAndArgs = { activeConfiguration.getJarCommand().toString(), "cMf", targetJARFilePath.toString(),
            "-C", tempDir.toAbsolutePath().toString(), "." };

    CommandExecutor cmd = new CommandExecutor();
    cmd.exec(cmdAndArgs);//from   w  w w . ja  v a  2s.  c o m
}

From source file:com.spectralogic.ds3client.helpers.FileObjectPutter_Test.java

@Test
public void testThatNamedPipeThrows() throws IOException, InterruptedException {
    Assume.assumeFalse(Platform.isWindows());

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

    final String FIFO_NAME = "bFifo";

    final AtomicBoolean caughtException = new AtomicBoolean(false);

    try {/* w w w.j a v a  2s  . co m*/
        Runtime.getRuntime().exec("mkfifo " + Paths.get(tempDirectory.toString(), FIFO_NAME)).waitFor();
        new FileObjectPutter(tempDirectory).buildChannel(FIFO_NAME);
    } catch (final UnrecoverableIOException e) {
        assertTrue(e.getMessage().contains(FIFO_NAME));
        caughtException.set(true);
    } finally {
        FileUtils.deleteDirectory(tempDirectory.toFile());
    }

    assertTrue(caughtException.get());
}

From source file:io.uploader.drive.drive.DriveOperations.java

private static Map<Path, File> createDirectoriesStructure(OperationResult operationResult, Drive client,
        File driveDestDirectory, Path srcDir, final StopRequester stopRequester,
        final HasStatusReporter statusReporter) throws IOException {

    Queue<Path> directoriesQueue = io.uploader.drive.util.FileUtils.getAllFilesPath(srcDir,
            FileFinderOption.DIRECTORY_ONLY);

    if (statusReporter != null) {
        statusReporter.setCurrentProgress(0.0);
        statusReporter.setTotalProgress(0.0);
        statusReporter.setStatus("Checking/creating directories structure...");
    }//from  w w  w  .ja v a  2 s .  c  o  m

    long count = 0;
    Path topParent = srcDir.getParent();
    Map<Path, File> localPathDriveFileMapping = new HashMap<Path, File>();
    localPathDriveFileMapping.put(topParent, driveDestDirectory);
    for (Path path : directoriesQueue) {
        try {
            if (statusReporter != null) {
                statusReporter.setCurrentProgress(0.0);
                statusReporter.setStatus(
                        "Checking/creating directories structure... (" + path.getFileName().toString() + ")");
            }

            if (hasStopBeenRequested(stopRequester)) {
                if (statusReporter != null) {
                    statusReporter.setStatus("Stopped!");
                }
                operationResult.setStatus(OperationCompletionStatus.STOPPED);
                return localPathDriveFileMapping;
            }

            File driveParent = localPathDriveFileMapping.get(path.getParent());
            if (driveParent == null) {
                throw new IllegalStateException(
                        "The path " + path.toString() + " does not have any parent in the drive (parent path "
                                + path.getParent().toString() + ")...");
            }
            // check whether driveParent already exists, otherwise create it
            File driveDirectory = createDirectoryIfNotExist(client, driveParent, path.getFileName().toString());
            localPathDriveFileMapping.put(path, driveDirectory);

            ++count;
            if (statusReporter != null) {
                double p = ((double) count) / directoriesQueue.size();
                statusReporter.setTotalProgress(p);
                statusReporter.setCurrentProgress(1.0);
            }
        } catch (Throwable e) {
            logger.error("Error occurred while creating the directory " + path.toString(), e);
            operationResult.setStatus(OperationCompletionStatus.ERROR);
            operationResult.addError(path, e);
        }
    }
    return localPathDriveFileMapping;
}