Example usage for java.io IOException getLocalizedMessage

List of usage examples for java.io IOException getLocalizedMessage

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Introduction

In this page you can find the example usage for java.io IOException getLocalizedMessage.

Prototype

public String getLocalizedMessage()

Source Link

Document

Creates a localized description of this throwable.

Usage

From source file:com.serena.rlc.provider.filesystem.client.FilesystemClient.java

public void localDelete(String destFolderPath, boolean ignoreNotExists) throws FilesystemClientException {
    Path destination = Paths.get(destFolderPath);

    try {/*from   w  w  w.j av a 2 s.co m*/
        if (!Files.exists(destination)) {
            if (ignoreNotExists) {
                logger.debug("Destination directory " + destFolderPath + " does not exist, ignoring...");
            } else {
                throw new FilesystemClientException(
                        "Destination directory " + destFolderPath + " does not exist");
            }
        } else {
            FileUtils.deleteDirectory(destination.toFile());
        }

    } catch (IOException e) {
        logger.debug(e.getLocalizedMessage());
        throw new FilesystemClientException(e.getLocalizedMessage());
    }

}

From source file:com.ibm.rpe.web.template.ui.servlet.SaveTemplateLayout.java

@GET
@Path("/generate")
@Produces({ MediaType.APPLICATION_OCTET_STREAM })
public Response generateTemplate(@Context HttpServletRequest request,
        @QueryParam("layoutjson") String layoutJson, @QueryParam("title") String title) {
    try {//from  w w w.j ava 2 s .c  o m
        if (title == null) {
            title = UUID.randomUUID().toString() + ".dta";
        } else {
            title += ".dta";
        }

        TemplateLayoutUIModel uiModel = (TemplateLayoutUIModel) JSONUtils.readValue(layoutJson,
                TemplateLayoutUIModel.class);

        System.out.println(JSONUtils.writeValue(uiModel));
        String serviceUrl = getServiceUrl(request);

        TemplateBuilderUIImpl tBuilder = new TemplateBuilderUIImpl(uiModel, serviceUrl);
        String templateJson = tBuilder.buildTemplateJson();

        String templatePath = tBuilder.buildTemplate(templateJson);

        return Utils.downloadResponse(new FileInputStream(templatePath), title);
    } catch (IOException e) {
        e.printStackTrace();
        Response.status(Response.Status.INTERNAL_SERVER_ERROR).entity(e.getLocalizedMessage()).build();
    } catch (Exception e) {
        e.printStackTrace();
        Response.status(Response.Status.INTERNAL_SERVER_ERROR).entity(e.getLocalizedMessage()).build();
    }
    return null;
}

From source file:com.serena.rlc.provider.filesystem.client.FilesystemClient.java

public void localCopy(String srcFolderPath, String destFolderPath, boolean preserveDates)
        throws FilesystemClientException {
    File source = new File(srcFolderPath);
    File destination = new File(destFolderPath);

    try {// w  ww  . ja v a  2s  .c  o m
        if (!source.exists()) {
            throw new FilesystemClientException("Source directory " + srcFolderPath + " does not exist");
        }

        if (!destination.exists()) {
            logger.debug("Target directory " + destFolderPath + " does not exist, but it will be created...");
        }

        FileUtils.copyDirectory(source, destination, preserveDates);

    } catch (IOException e) {
        logger.debug(e.getLocalizedMessage());
        throw new FilesystemClientException(e.getLocalizedMessage());
    }

}

From source file:com.civis.utils.html.parser.HtmlParserTest.java

private String getMailContent(String fileName) {
    String mailContent = "";
    try (InputStream inputStream = Thread.currentThread().getContextClassLoader()
            .getResourceAsStream(fileName)) {
        mailContent = IOUtils.toString(inputStream, "UTF-8");
        inputStream.close();// w ww  .  j av  a  2  s .  c o  m
    } catch (IOException e) {
        System.out.println(e.getLocalizedMessage());
    }

    return mailContent;
}

From source file:fr.sanofi.fcl4transmart.controllers.listeners.geneExpression.SetSiteIdListener.java

@Override
public void handleEvent(Event event) {
    // TODO Auto-generated method stub
    Vector<String> values = this.setSiteIdUI.getValues();
    Vector<String> samples = this.setSiteIdUI.getSamples();
    File file = new File(this.dataType.getPath().toString() + File.separator
            + this.dataType.getStudy().toString() + ".subject_mapping.tmp");
    File stsmf = ((GeneExpressionData) this.dataType).getStsmf();
    if (stsmf == null) {
        this.setSiteIdUI.displayMessage("Error: no subject to sample mapping file");
    }//from   w ww  .  ja va 2s .c om
    try {
        FileWriter fw = new FileWriter(file);
        BufferedWriter out = new BufferedWriter(fw);
        out.write(
                "study_id\tsite_id\tsubject_id\tSAMPLE_ID\tPLATFORM\tTISSUETYPE\tATTR1\tATTR2\tcategory_cd\n");

        try {
            BufferedReader br = new BufferedReader(new FileReader(stsmf));
            String line = br.readLine();
            while ((line = br.readLine()) != null) {
                String[] fields = line.split("\t", -1);
                String sample = fields[3];
                String site;
                if (samples.contains(sample)) {
                    site = values.get(samples.indexOf(sample));
                } else {
                    br.close();
                    return;
                }
                out.write(fields[0] + "\t" + site + "\t" + fields[2] + "\t" + sample + "\t" + fields[4] + "\t"
                        + fields[5] + "\t" + fields[6] + "\t" + fields[7] + "\t" + fields[8] + "\n");
            }
            br.close();
        } catch (Exception e) {
            this.setSiteIdUI.displayMessage("Error: " + e.getLocalizedMessage());
            out.close();
            e.printStackTrace();
        }
        out.close();
        try {
            File fileDest;
            if (stsmf != null) {
                String fileName = stsmf.getName();
                stsmf.delete();
                fileDest = new File(this.dataType.getPath() + File.separator + fileName);
            } else {
                fileDest = new File(this.dataType.getPath() + File.separator
                        + this.dataType.getStudy().toString() + ".subject_mapping");
            }
            FileUtils.moveFile(file, fileDest);
            ((GeneExpressionData) this.dataType).setSTSMF(fileDest);
        } catch (IOException ioe) {
            this.setSiteIdUI.displayMessage("File error: " + ioe.getLocalizedMessage());
            return;
        }
    } catch (Exception e) {
        this.setSiteIdUI.displayMessage("Error: " + e.getLocalizedMessage());
        e.printStackTrace();
    }
    this.setSiteIdUI.displayMessage("Subject to sample mapping file updated");
    WorkPart.updateSteps();
    WorkPart.updateFiles();
}

From source file:ca.phon.query.script.QueryScript.java

/**
 * Setup library folders for 'require'//from   ww w  .j  ava2  s .c  o m
 */
private void setupLibraryFolders() {
    final ClassLoader cl = PluginManager.getInstance();
    Enumeration<URL> libUrls;
    try {
        libUrls = cl.getResources("ca/phon/query/script/");
        while (libUrls.hasMoreElements()) {
            final URL url = libUrls.nextElement();
            try {
                final URI uri = url.toURI();
                super.addRequirePath(uri);
            } catch (URISyntaxException e) {
                LOGGER.log(Level.SEVERE, e.getLocalizedMessage(), e);
            }
        }
    } catch (IOException e1) {
        LOGGER.log(Level.SEVERE, e1.getLocalizedMessage(), e1);
    }

    super.addPackageImport("Packages.ca.phon.orthography");
    super.addPackageImport("Packages.ca.phon.ipa");
    super.addPackageImport("Packages.ca.phon.ipa.features");
    super.addPackageImport("Packages.ca.phon.phonex");
    super.addPackageImport("Packages.ca.phon.syllable");
    super.addPackageImport("Packages.ca.phon.util");
    super.addPackageImport("Packages.ca.phon.project");
    super.addPackageImport("Packages.ca.phon.session");

    super.addClassImport("Packages.org.apache.commons.lang3.StringUtils");
}

From source file:com.sliit.rules.RuleContainer.java

public boolean geneateModel(String savePath, boolean save) {
    System.out.println("Rule geneateModel");
    boolean status = false;
    try {/*from   w  w  w.  j  av  a2 s.  c  om*/

        instances = csv.getDataSet();
        if (!save) {

            loadSaveModel(savePath, save);
        } else {

            ruleMoldel = new JRip();
        }
        instances.setClassIndex(instances.numAttributes() - 1);
        ruleMoldel.buildClassifier(instances);
        loadSaveModel(savePath, true);
        status = true;
    } catch (IOException e) {
        status = false;
        log.error("Error occurred:" + e.getLocalizedMessage());
    } catch (Exception e) {
        status = false;
        log.error("Error occurred:" + e.getLocalizedMessage());
    }
    return status;
}

From source file:fr.sanofi.fcl4transmart.controllers.listeners.geneExpression.SetAttribute1Listener.java

@Override
public void handleEvent(Event event) {
    // TODO Auto-generated method stub
    Vector<String> values = this.setAttribute1UI.getValues();
    Vector<String> samples = this.setAttribute1UI.getSamples();
    File file = new File(this.dataType.getPath().toString() + File.separator
            + this.dataType.getStudy().toString() + ".subject_mapping.tmp");
    File stsmf = ((GeneExpressionData) this.dataType).getStsmf();
    if (stsmf == null) {
        this.setAttribute1UI.displayMessage("Error: no subject to sample mapping file");
    }/*w w  w.  j  a v a 2s.com*/
    try {
        FileWriter fw = new FileWriter(file);
        BufferedWriter out = new BufferedWriter(fw);
        out.write(
                "study_id\tsite_id\tsubject_id\tSAMPLE_ID\tPLATFORM\tTISSUETYPE\tATTR1\tATTR2\tcategory_cd\n");

        try {
            BufferedReader br = new BufferedReader(new FileReader(stsmf));
            String line = br.readLine();
            while ((line = br.readLine()) != null) {
                String[] fields = line.split("\t", -1);
                String sample = fields[3];
                String attribute;
                if (samples.contains(sample)) {
                    attribute = values.get(samples.indexOf(sample));
                } else {
                    br.close();
                    return;
                }
                out.write(fields[0] + "\t" + fields[1] + "\t" + fields[2] + "\t" + sample + "\t" + fields[4]
                        + "\t" + fields[5] + "\t" + attribute + "\t" + fields[7] + "\t" + fields[8] + "\n");
            }
            br.close();
        } catch (Exception e) {
            setAttribute1UI.displayMessage("File error: " + e.getLocalizedMessage());
            out.close();
            e.printStackTrace();
        }
        out.close();
        try {
            File fileDest;
            if (stsmf != null) {
                String fileName = stsmf.getName();
                stsmf.delete();
                fileDest = new File(this.dataType.getPath() + File.separator + fileName);
            } else {
                fileDest = new File(this.dataType.getPath() + File.separator
                        + this.dataType.getStudy().toString() + ".subject_mapping");
            }
            FileUtils.moveFile(file, fileDest);
            ((GeneExpressionData) this.dataType).setSTSMF(fileDest);
        } catch (IOException ioe) {
            this.setAttribute1UI.displayMessage("File error: " + ioe.getLocalizedMessage());
            return;
        }
    } catch (Exception e) {
        this.setAttribute1UI.displayMessage("Error: " + e.getLocalizedMessage());
        e.printStackTrace();
    }
    this.setAttribute1UI.displayMessage("Subject to sample mapping file updated");
    WorkPart.updateSteps();
    WorkPart.updateFiles();
}

From source file:fr.sanofi.fcl4transmart.controllers.listeners.geneExpression.SetAttribute2Listener.java

@Override
public void handleEvent(Event event) {
    // TODO Auto-generated method stub
    Vector<String> values = this.setAttribute2UI.getValues();
    Vector<String> samples = this.setAttribute2UI.getSamples();
    File file = new File(this.dataType.getPath().toString() + File.separator
            + this.dataType.getStudy().toString() + ".subject_mapping.tmp");
    File stsmf = ((GeneExpressionData) this.dataType).getStsmf();
    if (stsmf == null) {
        this.setAttribute2UI.displayMessage("Error: no subject to sample mapping file");
    }//from  w  ww . j a  v a  2  s .c  om
    try {
        FileWriter fw = new FileWriter(file);
        BufferedWriter out = new BufferedWriter(fw);
        out.write(
                "study_id\tsite_id\tsubject_id\tSAMPLE_ID\tPLATFORM\tTISSUETYPE\tATTR1\tATTR2\tcategory_cd\n");

        try {
            BufferedReader br = new BufferedReader(new FileReader(stsmf));
            String line = br.readLine();
            while ((line = br.readLine()) != null) {
                String[] fields = line.split("\t", -1);
                String sample = fields[3];
                String attribute;
                if (samples.contains(sample)) {
                    attribute = values.get(samples.indexOf(sample));
                } else {
                    br.close();
                    return;
                }
                out.write(fields[0] + "\t" + fields[1] + "\t" + fields[2] + "\t" + sample + "\t" + fields[4]
                        + "\t" + fields[5] + "\t" + fields[6] + "\t" + attribute + "\t" + fields[8] + "\n");
            }
            br.close();
        } catch (Exception e) {
            this.setAttribute2UI.displayMessage("File error: " + e.getLocalizedMessage());
            out.close();
            e.printStackTrace();
        }
        out.close();
        try {
            File fileDest;
            if (stsmf != null) {
                String fileName = stsmf.getName();
                stsmf.delete();
                fileDest = new File(this.dataType.getPath() + File.separator + fileName);
            } else {
                fileDest = new File(this.dataType.getPath() + File.separator
                        + this.dataType.getStudy().toString() + ".subject_mapping");
            }
            FileUtils.moveFile(file, fileDest);
            ((GeneExpressionData) this.dataType).setSTSMF(fileDest);
        } catch (IOException ioe) {
            this.setAttribute2UI.displayMessage("File error: " + ioe.getLocalizedMessage());
            return;
        }
    } catch (Exception e) {
        this.setAttribute2UI.displayMessage("Error: " + e.getLocalizedMessage());
        e.printStackTrace();
    }
    this.setAttribute2UI.displayMessage("Subject to sample mapping file updated");
    WorkPart.updateSteps();
    WorkPart.updateFiles();
}

From source file:fr.sanofi.fcl4transmart.controllers.listeners.geneExpression.SetPlatformsListener.java

@Override
public void handleEvent(Event event) {
    // TODO Auto-generated method stub
    Vector<String> values = this.setPlatformsUI.getValues();
    Vector<String> samples = this.setPlatformsUI.getSamples();
    File file = new File(this.dataType.getPath().toString() + File.separator
            + this.dataType.getStudy().toString() + ".subject_mapping.tmp");
    File stsmf = ((GeneExpressionData) this.dataType).getStsmf();
    if (stsmf == null) {
        this.setPlatformsUI.displayMessage("Error: no subject to sample mapping file");
    }//  w  ww. j  a va2 s . c o  m
    try {
        FileWriter fw = new FileWriter(file);
        BufferedWriter out = new BufferedWriter(fw);
        out.write(
                "study_id\tsite_id\tsubject_id\tSAMPLE_ID\tPLATFORM\tTISSUETYPE\tATTR1\tATTR2\tcategory_cd\n");

        try {
            BufferedReader br = new BufferedReader(new FileReader(stsmf));
            String line = br.readLine();
            while ((line = br.readLine()) != null) {
                String[] fields = line.split("\t", -1);
                String sample = fields[3];
                String platform;
                if (samples.contains(sample)) {
                    platform = values.get(samples.indexOf(sample));
                } else {
                    br.close();
                    return;
                }
                out.write(fields[0] + "\t" + fields[1] + "\t" + fields[2] + "\t" + sample + "\t" + platform
                        + "\t" + fields[5] + "\t" + fields[6] + "\t" + fields[7] + "\t" + fields[8] + "\n");
            }
            br.close();
        } catch (Exception e) {
            this.setPlatformsUI.displayMessage("Error: " + e.getLocalizedMessage());
            out.close();
            e.printStackTrace();
        }
        out.close();
        try {
            File fileDest;
            if (stsmf != null) {
                String fileName = stsmf.getName();
                stsmf.delete();
                fileDest = new File(this.dataType.getPath() + File.separator + fileName);
            } else {
                fileDest = new File(this.dataType.getPath() + File.separator
                        + this.dataType.getStudy().toString() + ".subject_mapping");
            }
            FileUtils.moveFile(file, fileDest);
            ((GeneExpressionData) this.dataType).setSTSMF(fileDest);
        } catch (IOException ioe) {
            this.setPlatformsUI.displayMessage("File error: " + ioe.getLocalizedMessage());
            return;
        }
    } catch (Exception e) {
        this.setPlatformsUI.displayMessage("Error: " + e.getLocalizedMessage());
        e.printStackTrace();
    }
    this.setPlatformsUI.displayMessage("Subject to sample mapping file updated");
    WorkPart.updateSteps();
    WorkPart.updateFiles();
}