Example usage for java.lang Integer decode

List of usage examples for java.lang Integer decode

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Introduction

In this page you can find the example usage for java.lang Integer decode.

Prototype

public static Integer decode(String nm) throws NumberFormatException

Source Link

Document

Decodes a String into an Integer .

Usage

From source file:org.hibernate.ogm.datastore.redis.impl.RedisDatastoreProvider.java

private synchronized JedisPool setupJedis() {

    String host = props.getProperty(Environment.REDIS_HOST, Environment.REDIS_DEFAULT_HOST);
    String port = props.getProperty(Environment.REDIS_PORT, Environment.REDIS_DEFAULT_PORT);
    String timeout = props.getProperty(Environment.REDIS_TIMEOUT, Environment.REDIS_DEFAULT_TIMEOUT);
    String password = props.getProperty(Environment.REDIS_PASSWORD, Environment.REDIS_DEFAULT_PASSWORD);
    String database = props.getProperty(Environment.REDIS_DATABASE, Environment.REDIS_DEFAULT_DATABASE);

    if (log.isDebugEnabled())
        log.debug("Create JedisPool... host=[{}], port=[{}], timeout=[{}], password=[{}], database=[{}]", host,
                port, timeout, password, database);

    return new JedisPool(getPoolConfig(), host, Integer.decode(port), Integer.decode(timeout), password,
            Integer.decode(database));
}

From source file:com.mirth.connect.connectors.mllp.MllpMessageReceiver.java

public MllpMessageReceiver(UMOConnector connector, UMOComponent component, UMOEndpoint endpoint)
        throws InitialisationException {
    super(connector, component, endpoint);
    MllpConnector tcpConnector = (MllpConnector) connector;
    this.connector = tcpConnector;

    if (tcpConnector.getCharEncoding().equals("hex")) {
        START_MESSAGE = (char) Integer.decode(tcpConnector.getMessageStart()).intValue();
        END_MESSAGE = (char) Integer.decode(tcpConnector.getMessageEnd()).intValue();
        END_OF_RECORD = (char) Integer.decode(tcpConnector.getRecordSeparator()).intValue();
        END_OF_SEGMENT = (char) Integer.decode(tcpConnector.getSegmentEnd()).intValue();
    } else {//from ww w. jav a  2 s .co  m
        // TODO: Ensure this is unit-tested
        START_MESSAGE = tcpConnector.getMessageStart().charAt(0);
        END_MESSAGE = tcpConnector.getMessageEnd().charAt(0);
        END_OF_RECORD = tcpConnector.getRecordSeparator().charAt(0);
        END_OF_SEGMENT = tcpConnector.getSegmentEnd().charAt(0);
    }
}

From source file:org.rti.zcore.dar.struts.action.ListAction.java

protected ActionForward doExecute(ActionMapping mapping, ActionForm form, HttpServletRequest request,
        HttpServletResponse response) throws Exception {

    //      Extract attributes we will need
    HttpSession session = request.getSession();
    Principal user = request.getUserPrincipal();
    String username = user.getName();
    Form encounterForm;/* w  w w .  j  a  v a  2s .co m*/
    BaseEncounter encounter = null;
    Map encMap = null;
    Long formId = null;
    Long patientId = null;
    Long eventId = null;
    String constraintClause = null;
    Long constraintLong = null;
    String detailName = null;
    BaseSessionSubject sessionPatient = null;
    Integer maxRows = 0;
    Integer offset = 0;
    Integer prevRows = 0;
    Integer nextRows = 0;
    Connection conn = null;
    String className = null;
    try {
        conn = DatabaseUtils.getZEPRSConnection(username);
        if (request.getParameter("formId") != null) {
            formId = Long.decode(request.getParameter("formId"));
        } else if (request.getAttribute("formId") != null) {
            formId = Long.decode(request.getAttribute("formId").toString());
        }
        if (request.getParameter("className") != null) {
            className = request.getParameter("className");
            formId = (Long) DynaSiteObjects.getFormNameMap().get(className);
        } else if (request.getAttribute("className") != null) {
            className = (String) request.getAttribute("className");
            formId = (Long) DynaSiteObjects.getFormNameMap().get(className);
        }
        if (request.getParameter("constraintClause") != null) {
            constraintClause = request.getParameter("constraintClause");
        } else if (request.getAttribute("constraintClause") != null) {
            constraintClause = request.getAttribute("constraintClause").toString();
        }
        if (request.getParameter("constraintLong") != null) {
            constraintLong = Long.decode(request.getParameter("constraintLong"));
        } else if (request.getAttribute("constraintLong") != null) {
            constraintLong = Long.decode(request.getAttribute("constraintLong").toString());
        }
        if (request.getParameter("maxRows") != null) {
            maxRows = Integer.decode(request.getParameter("maxRows"));
        } else if (request.getAttribute("maxRows") != null) {
            maxRows = Integer.decode(request.getAttribute("maxRows").toString());
        } else {
            if (formId != null) {
                switch (formId.intValue()) {
                case 128:
                    maxRows = 0;
                    break;
                case 129:
                    maxRows = 0;
                    break;
                case 130:
                    maxRows = 0;
                    break;
                case 131:
                    maxRows = 0;
                    break;
                case 181:
                    maxRows = 0;
                    break;

                default:
                    maxRows = 20;
                    break;
                }
            } else {
                maxRows = 20;
            }
        }
        if (request.getParameter("offset") != null) {
            offset = Integer.decode(request.getParameter("offset"));
        } else if (request.getAttribute("offset") != null) {
            offset = Integer.decode(request.getAttribute("offset").toString());
        }
        if (request.getParameter("prevRows") != null) {
            prevRows = Integer.decode(request.getParameter("prevRows"));
            offset = prevRows;
        } else if (request.getAttribute("prevRows") != null) {
            prevRows = Integer.decode(request.getAttribute("prevRows").toString());
            offset = prevRows;
        }
        if (request.getParameter("nextRows") != null) {
            nextRows = Integer.decode(request.getParameter("nextRows"));
        } else if (request.getAttribute("nextRows") != null) {
            nextRows = Integer.decode(request.getAttribute("nextRows").toString());
        }
        if (mapping.getParameter() != null && !mapping.getParameter().equals("")) {
            String formName = mapping.getParameter();
            formId = (Long) DynaSiteObjects.getFormNameMap().get(formName);
        }
        // Admin pages usually do not have a sessionPatient. This is a hack to use code that uses sessionPatient.
        sessionPatient = new TimsSessionSubject();
        SessionUtil.getInstance(session).setSessionPatient(sessionPatient);

        encounterForm = ((Form) DynaSiteObjects.getForms().get(new Long(formId)));
        Long formTypeId = encounterForm.getFormTypeId();
        // populate the records for this class
        List items = null;
        if (className != null && className.equals("MenuItem")) {
            items = DynaSiteObjects.getMenuItemList(); //must be sorted
        } else {
            String classname = StringManipulation.fixClassname(encounterForm.getName());
            Class clazz = null;
            try {
                clazz = Class.forName(Constants.getDynasiteFormsPackage() + "." + classname);
            } catch (ClassNotFoundException e1) {
                if (classname.equals("UserInfo")) {
                    clazz = Class.forName("org.rti.zcore." + classname);
                }
            }

            try {
                String orderBy = "id DESC";
                switch (formTypeId.intValue()) {
                case 5: // admin
                    if (constraintLong != null) {
                        /*if (formId == 161) { // stock
                           // Get the item - form 131
                           Class clazz = Class.forName(DynaSiteObjects.getDynasiteFormsPackage() + ".Item");
                           Item stockItem = (Item) EncountersDAO.getOne(conn, constraintLong, "SQL_RETRIEVE_ONE_ADMIN131", clazz);
                           detailName = stockItem.getField2153();
                           request.setAttribute("detailName", detailName);
                        }*/
                        //String orderBy = "id DESC";
                        items = EncountersDAO.getAllConstraintOrderBy(conn, formId,
                                "SQL_RETRIEVE_ALL_ADMIN" + formId, clazz, constraintClause, constraintLong,
                                orderBy);
                    } else {
                        if (formId == 161) { // stock
                            //items = EncountersDAO.getAll(conn, formId, "SQL_RETRIEVE_ALL_ADMIN" + formId, clazz, maxRows, offset, "id DESC");
                            if (maxRows == 0) {
                                items = EncountersDAO.getAllOrderBy(conn, formId,
                                        "SQL_RETRIEVE_ALL_ADMIN" + formId, clazz, orderBy);
                            } else {
                                items = EncountersDAO.getAll(conn, formId,
                                        "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset,
                                        orderBy);
                            }
                        } else if (formId == 128) { // regimen groups
                            //items = EncountersDAO.getAll(conn, formId, "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset, "name ");
                            if (maxRows == 0) {
                                items = EncountersDAO.getAllOrderBy(conn, formId,
                                        "SQL_RETRIEVE_ALL_ADMIN" + formId, clazz, "name ");
                            } else {
                                items = EncountersDAO.getAll(conn, formId,
                                        "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset,
                                        "name ");
                            }
                        } else if (formId == 129) { // regimen
                            //items = EncountersDAO.getAll(conn, formId, "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset, "code ");
                            if (maxRows == 0) {
                                items = EncountersDAO.getAllOrderBy(conn, formId,
                                        "SQL_RETRIEVE_ALL_ADMIN" + formId, clazz, "code ");
                            } else {
                                items = EncountersDAO.getAll(conn, formId,
                                        "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset,
                                        "code ");
                            }
                        } else if (formId == 130) { // item groups
                            //items = EncountersDAO.getAll(conn, formId, "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset, "name ");
                            if (maxRows == 0) {
                                items = EncountersDAO.getAllOrderBy(conn, formId,
                                        "SQL_RETRIEVE_ALL_ADMIN" + formId, clazz, "name ");
                            } else {
                                items = EncountersDAO.getAll(conn, formId,
                                        "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset,
                                        "name ");
                            }
                        } else {
                            if (className != null && className.equals("MenuItem")) {
                                items = DynaSiteObjects.getMenuItemList(); //must be sorted
                            } else {
                                if (formId == 181) {
                                    orderBy = "regimen_id DESC";
                                    if (maxRows == 0) {
                                        //items = EncountersDAO.getAllOrderBy(conn, formId, "SQL_RETRIEVE_ALL_ADMIN" + formId, clazz, orderBy);
                                        String sql = "SELECT rb.id, rb.regimen_id AS regimen_id, item_id AS item_id, r.code "
                                                + "FROM regimen_item_bridge rb, regimen r "
                                                + "WHERE rb.regimen_id = r.id ORDER BY r.code ASC";
                                        ArrayList values = new ArrayList();
                                        items = DatabaseUtils.getList(conn, clazz, sql, values);
                                    } else {
                                        items = EncountersDAO.getAll(conn, formId,
                                                "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset,
                                                orderBy);
                                    }
                                } else {
                                    if (maxRows == 0) {
                                        items = EncountersDAO.getAllOrderBy(conn, formId,
                                                "SQL_RETRIEVE_ALL_ADMIN" + formId, clazz, orderBy);
                                    } else {
                                        items = EncountersDAO.getAll(conn, formId,
                                                "SQL_RETRIEVE_ALL_ADMIN_PAGER" + formId, clazz, maxRows, offset,
                                                orderBy);
                                    }
                                }
                            }
                        }
                    }
                    break;
                case 8: // list - for patients
                    items = EncountersDAO.getAll(conn, formId, "SQL_RETRIEVEALL" + formId, clazz, maxRows,
                            offset);
                    break;
                default:
                    items = EncountersDAO.getAll(conn, formId, "SQL_RETRIEVE_ALL" + formId, clazz, maxRows,
                            offset);
                    break;
                }
            } catch (IOException e) {
                request.setAttribute("exception", e);
                return mapping.findForward("error");
            } catch (ServletException e) {
                request.setAttribute("exception", e);
                return mapping.findForward("error");
            } catch (SQLException e) {
                request.setAttribute("exception", e);
                return mapping.findForward("error");
            }
        }

        if (maxRows == 0) {
            request.setAttribute("noNavigationWidget", "1");
        } else {
            request.setAttribute("maxRows", maxRows);
            nextRows = offset + maxRows;
            if (items.size() < maxRows) {
                if (offset == 0) {
                    request.setAttribute("noNavigationWidget", "1");
                }
            } else {
                request.setAttribute("offset", nextRows);
            }

            if (offset - maxRows >= 0) {
                prevRows = offset - maxRows;
                request.setAttribute("prevRows", prevRows);
            }
            request.setAttribute("nextRows", nextRows);
        }
        // Attach a map of encounter values that has enumerations already resolved.
        Form encForm = (Form) DynaSiteObjects.getForms().get(encounterForm.getId());
        for (int i = 0; i < items.size(); i++) {
            encounter = (EncounterData) items.get(i);
            // Form encForm = (Form) DynaSiteObjects.getForms().get(encounter.getFormId());
            encMap = PatientRecordUtils.getEncounterMap(encForm, encounter, "fieldId");

            encounter.setEncounterMap(encMap);
        }
        if (items.size() > 0) {
            request.setAttribute("chartItems", items);
            request.setAttribute("formId", encounterForm.getId());
            // loading of body onload DWRUtil.useLoadingMessage()
            request.setAttribute("dwr", 1);
        }

        // Process the dynamic dropdown lists.
        HashMap listMap = new HashMap();
        Form inlineForm = null;
        HashMap<Long, StockReport> balanceMap = null;
        if (DynaSiteObjects.getStatusMap().get("balanceMap") != null) {
            balanceMap = (HashMap<Long, StockReport>) DynaSiteObjects.getStatusMap().get("balanceMap");
        }
        for (Iterator iterator = encounterForm.getPageItems().iterator(); iterator.hasNext();) {
            PageItem pageItem = (PageItem) iterator.next();
            FormField formField = pageItem.getForm_field();
            String identifier = formField.getIdentifier();

            if (pageItem.getInputType().equals("dropdown") || pageItem.getInputType().equals("dropdown-add-one")
                    || pageItem.getInputType().equals("dropdown_site")) {
                String dropdownConstraint = null;
                String pageItemDropdownConstraint = pageItem.getDropdownConstraint();
                if (pageItemDropdownConstraint != null && pageItemDropdownConstraint.endsWith("'siteAbbrev'")) {
                    String siteAbbrev = SessionUtil.getInstance(session).getClientSettings().getSite()
                            .getAbbreviation();
                    dropdownConstraint = pageItemDropdownConstraint.replace("'siteAbbrev'",
                            "'" + siteAbbrev + "'");
                } else {
                    dropdownConstraint = pageItemDropdownConstraint;
                }
                List<DropdownItem> list = WidgetUtils.getList(conn, pageItem.getDropdownTable(),
                        pageItem.getDropdownColumn(), dropdownConstraint, pageItem.getDropdownOrderByClause(),
                        DropdownItem.class, pageItem.getFkIdentifier());
                String formName = encForm.getClassname();
                if (formName.equals("StockControl")) {
                    for (DropdownItem dropdownItem : list) {
                        if (balanceMap != null) {
                            String itemIdStr = dropdownItem.getDropdownId();
                            Long itemId = Long.valueOf(itemIdStr);
                            StockReport stockReport = balanceMap.get(itemId);
                            Integer balance = 0;
                            if (stockReport != null) {
                                balance = stockReport.getBalanceBF();
                                String label = dropdownItem.getDropdownValue();
                                if (balance <= 0) {
                                    String value = dropdownItem.getDropdownValue();
                                    dropdownItem
                                            .setDropdownValue(value + " ** Out of Stock ** Bal: " + balance);
                                } else {
                                    dropdownItem.setDropdownValue(label + " Bal: " + balance);
                                }
                            }
                        }
                    }
                }
                listMap.put(pageItem.getId(), list);
                if (pageItem.getInputType().equals("dropdown-add-one")) {
                    String classNameString = StringManipulation.fixClassname(pageItem.getDropdownTable());
                    Long inlineFormId = (Long) DynaSiteObjects.getFormNameMap().get(classNameString);
                    inlineForm = ((Form) DynaSiteObjects.getForms().get(new Long(inlineFormId)));
                    // Create a list of fieldnames for inline forms.
                    ArrayList<String> inlineFields = new ArrayList<String>();
                    for (Iterator iterator2 = inlineForm.getPageItems().iterator(); iterator2.hasNext();) {
                        PageItem pageItem2 = (PageItem) iterator2.next();
                        if (pageItem2.getForm_field().isEnabled() == true
                                && !pageItem2.getForm_field().getType().equals("Display")) {
                            inlineFields.add(pageItem2.getForm_field().getIdentifier());
                        }
                    }
                    request.setAttribute("inlineForm_" + identifier, inlineForm);
                    request.setAttribute("inlineFields_" + identifier, inlineFields);
                    // loading of body onload DWRUtil.useLoadingMessage()
                    request.setAttribute("dwr", 1);
                }
            }
        }

        request.setAttribute("listMap", listMap);

        request.setAttribute("encounterForm", encounterForm);

        List sites = DynaSiteObjects.getClinics();
        request.setAttribute("sites", sites);

        if (Constants.STOCK_PROBLEMS_ENABLED != null && Constants.STOCK_PROBLEMS_ENABLED.equals("true")) {
            //List<Task> stockAlertList = PatientRecordUtils.getStockAlerts();
            List<Task> stockAlertList = null;
            if (DynaSiteObjects.getStatusMap().get("stockAlertList") != null) {
                stockAlertList = (List<Task>) DynaSiteObjects.getStatusMap().get("stockAlertList");
            }
            request.setAttribute("activeProblems", stockAlertList);
        }

    } catch (Exception e) {
        e.printStackTrace();
    } finally {
        if (conn != null && !conn.isClosed()) {
            conn.close();
        }
    }
    return mapping.findForward("success");
}

From source file:uni.bielefeld.cmg.sparkhit.util.ParameterForCorrelationer.java

public DefaultParam importCommandLine() {

    /* Assigning Parameter ID to an ascending number */
    putParameterID();// w  ww  .  j  a va  2  s . c  om

    /* Assigning parameter descriptions to each parameter ID */
    addParameterInfo();

    /* need a Object parser of PosixParser class for the function parse of CommandLine class */
    PosixParser parser = new PosixParser();

    /* print out help information */
    HelpParam help = new HelpParam(parameter, parameterMap);

    /* check each parameter for assignment */
    try {
        long input_limit = -1;
        int threads = Runtime.getRuntime().availableProcessors();

        /* Set Object cl of CommandLine class for Parameter storage */
        CommandLine cl = parser.parse(parameter, arguments, true);
        if (cl.hasOption(HELP)) {
            help.printStatisticerHelp();
            System.exit(0);
        }

        if (cl.hasOption(HELP2)) {
            help.printStatisticerHelp();
            System.exit(0);
        }

        if (cl.hasOption(VERSION)) {
            System.exit(0);
        }

        /* Checking all parameters */

        String value;

        if ((value = cl.getOptionValue(PARTITIONS)) != null) {
            param.partitions = Integer.decode(value);
        }

        if ((value = cl.getOptionValue(COLUMN)) != null) {
            param.columns = value;
            param.columnStart = Integer.decode(value.split("-")[0]);
            param.columnEnd = Integer.decode(value.split("-")[1]);
        } else {
            param.columnStart = Integer.decode(param.columns.split("-")[0]);
            param.columnEnd = Integer.decode(param.columns.split("-")[1]);
        }

        if (cl.hasOption(CACHE)) {
            param.cache = true;
        }

        if ((value = cl.getOptionValue(INPUT_VCF)) != null) {
            param.inputFqPath = value;
        } else if ((value = cl.getOptionValue(INPUT_TAB)) != null) {
            param.inputFqPath = value;
        } else {
            help.printStatisticerHelp();
            System.exit(0);
            //                throw new IOException("Input file not specified.\nUse -help for list of options");
        }

        /* not applicable for HDFS and S3 */
        /* using TextFileBufferInput for such purpose */
        //         File inputFastq = new File(param.inputFqPath).getAbsoluteFile();
        //         if (!inputFastq.exists()){
        //            err.println("Input query file not found.");
        //            return;
        //i         }

        if ((value = cl.getOptionValue(OUTPUT_LINE)) != null) {
            param.outputPath = value;
        } else {
            help.printStatisticerHelp();
            info.readMessage("Output file not set with -outfile options");
            info.screenDump();
            System.exit(0);
        }

        File outfile = new File(param.outputPath).getAbsoluteFile();
        if (outfile.exists()) {
            info.readParagraphedMessages(
                    "Output file : \n\t" + param.outputPath + "\nalready exists, will be overwrite.");
            info.screenDump();
            Runtime.getRuntime().exec("rm -rf " + param.outputPath);
        }

    } catch (IOException e) { // Don`t catch this, NaNaNaNa, U can`t touch this.
        info.readMessage("Parameter settings incorrect.");
        info.screenDump();
        e.printStackTrace();
        System.exit(0);
    } catch (RuntimeException e) {
        info.readMessage("Parameter settings incorrect.");
        info.screenDump();
        e.printStackTrace();
        System.exit(0);
    } catch (ParseException e) {
        info.readMessage("Parameter settings incorrect.");
        info.screenDump();
        e.printStackTrace();
        System.exit(0);
    }

    return param;
}

From source file:org.forgerock.openidm.shell.impl.RemoteCommandScope.java

private void processOptions(final String userPass, final String idmUrl, final String idmPort) {
    String username = "";
    String password = "";

    if (StringUtils.isNotBlank(userPass)) {
        int passwordIdx = userPass.indexOf(":") + 1;

        if (passwordIdx > 0) {
            username = userPass.substring(0, passwordIdx - 1);
            password = userPass.substring(passwordIdx);
        } else {/* www .j  a v  a2  s  .c o m*/
            username = userPass;
            password = new String(System.console().readPassword("Password:"));
        }

        resource.setUsername(username);
        resource.setPassword(password);
    }

    if (StringUtils.isNotBlank(idmUrl)) {
        resource.setBaseUri(idmUrl.endsWith("/") ? idmUrl : idmUrl + "/");
    }

    if (StringUtils.isNotBlank(idmPort)) {
        if (NumberUtils.isDigits(idmPort)) {
            resource.setPort(Integer.decode(idmPort));
        } else {
            throw new IllegalArgumentException("Port must be a number");
        }
    }
}

From source file:net.malisis.advert.advert.ServerAdvert.java

public static void readListing() {
    File listing = new File(packDir, advertListing);
    if (!listing.exists())
        return;/*  w w  w .  jav  a2s. c om*/
    try (BufferedReader br = new BufferedReader(new FileReader(listing))) {

        for (String line; (line = br.readLine()) != null;) {
            String[] parts = line.split(";");
            if (parts.length == 3 || parts.length == 4) {
                int id = Integer.decode(parts[0]);
                ServerAdvert advert = new ServerAdvert(id);
                advert.setInfos(parts[1], parts[2]);
                if (parts.length == 4)
                    advert.setHash(parts[3]);

                adverts.put(id, advert);
                if (id >= globalId)
                    globalId = id + 1;
            }
        }
    } catch (IOException e) {
        MalisisAdvert.log.error("Could not read advert listing file : ", e);
    }
}

From source file:org.jbpm.formModeler.components.renderer.FormRenderingComponent.java

public CommandResponse actionDoResize(CommandRequest request) {
    String ctxUID = request.getRequestObject().getParameter("ctxUID");

    if (ctx == null || ctx.getUID().equals(ctxUID))
        ctx = formRenderContextManager.getFormRenderContext(ctxUID);
    if (ctx != null) {
        String width = request.getRequestObject().getParameter("width");
        String height = request.getRequestObject().getParameter("height");

        if (!StringUtils.isEmpty(width) && !StringUtils.isEmpty(height)) {
            ResizeFormcontainerEvent event = new ResizeFormcontainerEvent();
            event.setContext(new FormRenderContextTO(ctx));
            event.setWidth(Integer.decode(width));
            event.setHeight(Integer.decode(height));
            formRenderContextManager.fireContextFormResize(event);
        }//from ww  w . ja  v  a  2  s . co  m
    }

    return new DoNothingResponse();
}

From source file:uni.bielefeld.cmg.sparkhit.util.ParameterForReporter.java

public DefaultParam importCommandLine() {

    /* Assigning Parameter ID to an ascending number */
    putParameterID();/*w  ww.j a va2s.co  m*/

    /* Assigning parameter descriptions to each parameter ID */
    addParameterInfo();

    /* need a Object parser of PosixParser class for the function parse of CommandLine class */
    PosixParser parser = new PosixParser();

    /* print out help information */
    HelpParam help = new HelpParam(parameter, parameterMap);

    /* check each parameter for assignment */
    try {
        long input_limit = -1;
        int threads = Runtime.getRuntime().availableProcessors();

        /* Set Object cl of CommandLine class for Parameter storage */
        CommandLine cl = parser.parse(parameter, arguments, true);
        if (cl.hasOption(HELP)) {
            help.printReporterHelp();
            System.exit(0);
        }

        if (cl.hasOption(HELP2)) {
            help.printReporterHelp();
            System.exit(0);
        }

        if (cl.hasOption(VERSION)) {
            System.exit(0);
        }

        /* Checking all parameters */

        String value;

        if ((value = cl.getOptionValue(PARTITIONS)) != null) {
            param.partitions = Integer.decode(value);
        }

        if ((value = cl.getOptionValue(INPUT_KEY)) != null) {
            param.word = value;
        }

        if ((value = cl.getOptionValue(INPUT_VALUE)) != null) {
            param.count = Integer.decode(value);
        }

        if ((value = cl.getOptionValue(INPUT_HIT)) != null) {
            param.inputResultPath = value;
        } else {
            help.printReporterHelp();
            System.exit(0);
            // throw new IOException("Input file not specified.\nUse -help for list of options");
        }

        /* not applicable for HDFS and S3 */
        /* using TextFileBufferInput for such purpose */
        //         File inputFastq = new File(param.inputFqPath).getAbsoluteFile();
        //         if (!inputFastq.exists()){
        //            err.println("Input query file not found.");
        //            return;
        //i         }

        if ((value = cl.getOptionValue(OUTPUT_REPORT)) != null) {
            param.outputPath = value;
        } else {
            info.readMessage("Output file not set of -outfile options");
            info.screenDump();
        }

        File outfile = new File(param.outputPath).getAbsoluteFile();
        if (outfile.exists()) {
            info.readParagraphedMessages(
                    "Output file : \n\t" + param.outputPath + "\nalready exists, will be overwrite.");
            info.screenDump();
            Runtime.getRuntime().exec("rm -rf " + param.outputPath);
        }

        // param.bestNas = (param.alignLength * param.readIdentity) / 100;
        // param.bestKmers = param.alignLength - (param.alignLength - param.bestNas) * 4 - 3;

    } catch (IOException e) { // Don`t catch this, NaNaNaNa, U can`t touch this.
        info.readMessage("Parameter settings incorrect.");
        info.screenDump();
        e.printStackTrace();
        System.exit(0);
    } catch (RuntimeException e) {
        info.readMessage("Parameter settings incorrect.");
        info.screenDump();
        e.printStackTrace();
        System.exit(0);
    } catch (ParseException e) {
        info.readMessage("Parameter settings incorrect.");
        info.screenDump();
        e.printStackTrace();
        System.exit(0);
    }

    return param;
}

From source file:org.apache.cocoon.util.JDBCTypeConversions.java

/**
 * Converts an object to a JDBC type. This has just been started
 * and does not do much at the moment.//  w  ww . j a  va  2s.  co m
 *
 */
public static Object convert(Object value, String jType) {

    Object object = null;
    if (jType.equalsIgnoreCase("string")) {
        if (value instanceof String) {
            object = value;
        } else {
            object = value.toString();
        }
    } else if (jType.equalsIgnoreCase("int")) {
        if (value instanceof String) {
            object = Integer.decode((String) value);
        } else if (value instanceof Integer) {
            object = value;
        } else {
            //
        }
    } else if (jType.equalsIgnoreCase("long")) {
        if (value instanceof String) {
            object = Long.decode((String) value);
        } else if (value instanceof Long) {
            object = value;
        } else {
            //
        }
    } else {
        // other types need parsing & creation
        //
    }
    return object;
}

From source file:mil.jpeojtrs.sca.util.AnyUtils.java

/**
 * Attempts to convert the string value to the appropriate Java type.
 * // w w w. j ava 2s. c  o m
 * @param stringValue the string form of the value
 * @param type the string form of the TypeCode
 * @return A Java object of theString corresponding to the typecode
 */
private static Object primitiveConvertString(final String stringValue, final String type) {
    if (stringValue == null) {
        return null;
    }
    if ("string".equals(type)) {
        return stringValue;
    } else if ("wstring".equals(type)) {
        return stringValue;
    } else if ("boolean".equals(type)) {
        if ("true".equalsIgnoreCase(stringValue) || "false".equalsIgnoreCase(stringValue)) {
            return Boolean.parseBoolean(stringValue);
        }
        throw new IllegalArgumentException(stringValue + " is not a valid boolean value");
    } else if ("char".equals(type)) {
        switch (stringValue.length()) {
        case 1:
            return stringValue.charAt(0);
        case 0:
            return null;
        default:
            throw new IllegalArgumentException(stringValue + " is not a valid char value");
        }
    } else if ("wchar".equals(type)) {
        return stringValue.charAt(0);
    } else if ("double".equals(type)) {
        return Double.parseDouble(stringValue);
    } else if ("float".equals(type)) {
        return Float.parseFloat(stringValue);
    } else if ("short".equals(type)) {
        return Short.decode(stringValue);
    } else if ("long".equals(type)) {
        return Integer.decode(stringValue);
    } else if ("longlong".equals(type)) {
        return Long.decode(stringValue);
    } else if ("ulong".equals(type)) {
        final long MAX_UINT = 2L * Integer.MAX_VALUE + 1L;
        final Long retVal = Long.decode(stringValue);
        if (retVal < 0 || retVal > MAX_UINT) {
            throw new IllegalArgumentException(
                    "ulong value must be greater than '0' and less than " + MAX_UINT);
        }
        return retVal;
    } else if ("ushort".equals(type)) {
        final int MAX_USHORT = 2 * Short.MAX_VALUE + 1;
        final Integer retVal = Integer.decode(stringValue);
        if (retVal < 0 || retVal > MAX_USHORT) {
            throw new IllegalArgumentException(
                    "ushort value must be greater than '0' and less than " + MAX_USHORT);
        }
        return retVal;
    } else if ("ulonglong".equals(type)) {
        final BigInteger MAX_ULONG_LONG = BigInteger.valueOf(Long.MAX_VALUE).multiply(BigInteger.valueOf(2))
                .add(BigInteger.ONE);
        final BigInteger retVal = AnyUtils.bigIntegerDecode(stringValue);
        if (retVal.compareTo(BigInteger.ZERO) < 0 || retVal.compareTo(MAX_ULONG_LONG) > 0) {
            throw new IllegalArgumentException(
                    "ulonglong value must be greater than '0' and less than " + MAX_ULONG_LONG.toString());
        }
        return retVal;
    } else if ("objref".equals(type)) {
        if ("".equals(stringValue)) {
            return null;
        }
        final List<String> objrefPrefix = Arrays.asList("IOR:", "corbaname:", "corbaloc:");
        for (final String prefix : objrefPrefix) {
            if (stringValue.startsWith(prefix)) {
                return stringValue;
            }
        }
        throw new IllegalArgumentException(stringValue + " is not a valid objref value");
    } else if ("octet".equals(type)) {
        final short MIN_OCTET = 0;
        final short MAX_OCTET = 0xFF;
        final short val = Short.decode(stringValue);
        if (val <= MAX_OCTET && val >= MIN_OCTET) {
            return Short.valueOf(val);
        }
        throw new IllegalArgumentException(stringValue + " is not a valid octet value");
    } else {
        throw new IllegalArgumentException("Unknown CORBA Type: " + type);
    }
}