Example usage for java.io PrintWriter write

List of usage examples for java.io PrintWriter write

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Introduction

In this page you can find the example usage for java.io PrintWriter write.

Prototype

public void write(String s)

Source Link

Document

Writes a string.

Usage

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

public static void writeRPKM(final String outputFileName, final ObjectList<AnnotationRPKM> annotationList,
        final boolean append) {
    PrintWriter writer = null;
    final File outputFile = new File(outputFileName);

    try {/* www . j a v  a 2  s.  c  om*/
        if (!outputFile.exists()) {
            writer = new PrintWriter(outputFile);

            // Write the file header
            writer.write(
                    "Chromosome_Name\tStrand\tPrimary_ID\tSecondary_ID\tTranscript_Start\tTranscript_End\tAverage_RPKM\n");
        } else {
            writer = new PrintWriter(new FileOutputStream(outputFile, append));
        }

        final ObjectListIterator<AnnotationRPKM> annotIterator = annotationList.listIterator();
        while (annotIterator.hasNext()) {
            final AnnotationRPKM annotation = annotIterator.next();
            annotation.write(writer);
        }
    } catch (FileNotFoundException fnfe) {
        System.err.println("Caught exception in writeAnnotations: " + fnfe.getMessage());
        System.exit(1);
    } finally {
        IOUtils.closeQuietly(writer);
    }
}

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

public static void writeAnnotations(final String outputFileName, final ObjectList<Annotation> annotationList,
        final boolean append) {
    PrintWriter writer = null;
    final File outputFile = new File(outputFileName);

    try {// w w  w . j a v  a 2s.  c om
        if (!outputFile.exists()) {
            writer = new PrintWriter(outputFile);

            // Write the file header
            writer.write(
                    "Chromosome_Name\tStrand\tPrimary_ID\tSecondary_ID\tTranscript_Start\tTranscript_End\n");
        } else {
            writer = new PrintWriter(new FileOutputStream(outputFile, append));
        }

        final ObjectListIterator<Annotation> annotIterator = annotationList.listIterator();
        while (annotIterator.hasNext()) {
            final Annotation annotation = annotIterator.next();
            annotation.write(writer);
        }
    } catch (FileNotFoundException fnfe) {
        System.err.println("Caught exception in writeAnnotations: " + fnfe.getMessage());
        System.exit(1);
    } finally {
        IOUtils.closeQuietly(writer);
    }
}

From source file:de.xwic.appkit.core.remote.server.RemoteDataAccessServlet.java

/**
 * @param pwOut/*from  ww w .  jav a  2 s  .c o  m*/
 */
public static void printResponse(final PrintWriter pwOut, final String response) {
    Document docResponse = DocumentFactory.getInstance().createDocument();
    Element rootResponse = docResponse.addElement(ELM_RESPONSE);
    rootResponse.addAttribute(PARAM_VALUE, response);
    pwOut.write(docResponse.asXML());
}

From source file:at.tuwien.ifs.somtoolbox.data.InputDataWriter.java

public static void writeInputDatumToFile(PrintWriter writer, String label, DoubleMatrix1D vector)
        throws IOException {
    for (int i = 0; i < vector.size(); i++) {
        if (!Double.isNaN(vector.get(i))) {
            writer.write(vector.get(i) + " ");
        } else {//  w  w  w  . j a  v  a2 s .  co m
            writer.write("? ");
        }
    }
    writer.println(label);
}

From source file:at.tuwien.ifs.somtoolbox.data.InputDataWriter.java

/** Writes the class information to a file in SOMLib format. */
public static void writeAsSOMLib(SOMLibClassInformation classInfo, String fileName)
        throws IOException, SOMLibFileFormatException {
    PrintWriter writer = FileUtils.openFileForWriting("SOMLib class info", fileName);
    writer.println("$TYPE class_information");
    writer.println("$NUM_CLASSES " + classInfo.numClasses());
    writer.write("$CLASS_NAMES ");
    for (int i = 0; i < classInfo.numClasses(); i++) {
        writer.write(classInfo.getClassName(i));
        if (i + 1 < classInfo.numClasses()) {
            writer.write(" ");
        }//from   w w w .  j  a  v  a  2 s  . c o  m
    }
    writer.println();
    writer.println("$XDIM 2");
    writer.println("$YDIM " + classInfo.numData);
    for (String element : classInfo.getDataNames()) {
        writer.println(element + " " + classInfo.getClassName(element));
    }

    writer.flush();
    writer.close();
}

From source file:TrainLogistic.java

private static void saveTo(FileOutputStream modelOutput, OnlineLogisticRegression lr) {
    PrintWriter w = new PrintWriter(new OutputStreamWriter(modelOutput));
    String str = new String(" ");
    //System.out.printf("%d columns\n",lr.getBeta().numCols());
    System.out.printf("Now, writing file...\n");
    for (int column = 0; column < lr.getBeta().numCols(); column++) {
        //System.out.printf("%f, ", lr.getBeta().get(0, column));
        str = java.lang.String.format("%f\n", lr.getBeta().get(0, column));
        w.write(str);
        w.flush();//from   w  w w.j a  va  2  s. c o  m
    }
    w.close();
}

From source file:eu.annocultor.converters.europeana.EuropeanaSolrDocumentTagger.java

public static void start(String solrServerFrom, String solrServerTo, String query, int start)
        throws MalformedURLException, Exception {

    Environment environment = new EnvironmentImpl();

    PrintWriter log = new PrintWriter(
            new FileWriter(new File(environment.getAnnoCultorHome(), "enrichment.log")));
    try {// ww  w  .  ja  v a 2 s  .c  o m
        EuropeanaSolrDocumentTagger tagger = new EuropeanaSolrDocumentTagger(query, solrServerFrom,
                solrServerTo, start, log);
        tagger.init("Europeana");
        if (start == 0) {
            tagger.clearDestination(query);
        }
        tagger.tag();
        tagger.report();
        ReportPresenter.generateReport(environment.getAnnoCultorHome());
    } catch (Exception e) {
        e.printStackTrace(new PrintWriter(log));
    } finally {
        log.write("SEMANTIC ENRICHMENT COMPLETED");
        log.flush();
        log.close();
    }
}

From source file:controllers.IndexServlet.java

private static void Track(HttpServletRequest request, HttpServletResponse response, PrintWriter writer) {
    String userAddress = request.getParameter("userAddress");
    String fileName = request.getParameter("fileName");

    String storagePath = DocumentManager.StoragePath(fileName, userAddress);
    String body = "";

    try {//from  w ww .j a  v a 2 s.com
        Scanner scanner = new Scanner(request.getInputStream()).useDelimiter("\\A");
        body = scanner.hasNext() ? scanner.next() : "";
    } catch (Exception ex) {
        writer.write("get request.getInputStream error:" + ex.getMessage());
        return;
    }

    if (body.isEmpty()) {
        writer.write("empty request.getInputStream");
        return;
    }

    JSONParser parser = new JSONParser();
    JSONObject jsonObj;

    try {
        Object obj = parser.parse(body);
        jsonObj = (JSONObject) obj;
    } catch (Exception ex) {
        writer.write("JSONParser.parse error:" + ex.getMessage());
        return;
    }

    long status = (long) jsonObj.get("status");

    if (status == 2 || status == 3)//MustSave, Corrupted
    {
        String downloadUri = (String) jsonObj.get("url");

        int saved = 1;
        try {
            URL url = new URL(downloadUri);
            java.net.HttpURLConnection connection = (java.net.HttpURLConnection) url.openConnection();
            InputStream stream = connection.getInputStream();

            if (stream == null) {
                throw new Exception("Stream is null");
            }

            File savedFile = new File(storagePath);
            try (FileOutputStream out = new FileOutputStream(savedFile)) {
                int read;
                final byte[] bytes = new byte[1024];
                while ((read = stream.read(bytes)) != -1) {
                    out.write(bytes, 0, read);
                }

                out.flush();
            }

            connection.disconnect();

        } catch (Exception ex) {
            saved = 0;
        }
    }

    writer.write("{\"error\":0}");
}

From source file:org.apache.asterix.api.http.server.ResultUtil.java

public static void apiErrorHandler(PrintWriter out, Exception e) {
    int errorCode = 99;
    if (e instanceof ParseException) {
        errorCode = 2;/*from  w w  w.  j av a  2  s  .c  om*/
    } else if (e instanceof AlgebricksException) {
        errorCode = 3;
    } else if (e instanceof HyracksDataException) {
        errorCode = 4;
    }

    ObjectNode errorResp = ResultUtil.getErrorResponse(errorCode, extractErrorMessage(e),
            extractErrorSummary(e), extractFullStackTrace(e));
    out.write(errorResp.toString());
}

From source file:edu.uci.ics.asterix.result.ResultUtils.java

public static void apiErrorHandler(PrintWriter out, Exception e) {
    int errorCode = 99;
    if (e instanceof ParseException) {
        errorCode = 2;//from  w  ww. j av a  2 s. c  om
    } else if (e instanceof AlgebricksException) {
        errorCode = 3;
    } else if (e instanceof HyracksDataException) {
        errorCode = 4;
    }

    JSONObject errorResp = ResultUtils.getErrorResponse(errorCode, extractErrorMessage(e),
            extractErrorSummary(e), extractFullStackTrace(e));
    out.write(errorResp.toString());
}